medsci-skills 4.1.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/LICENSE +50 -0
- package/README.md +602 -0
- package/README_FIRST.md +27 -0
- package/bin/medsci-skills.js +159 -0
- package/installers/install-macos.command +19 -0
- package/installers/install-windows.cmd +26 -0
- package/installers/install-windows.ps1 +17 -0
- package/installers/install.py +218 -0
- package/metadata/skills_catalog.json +452 -0
- package/package.json +48 -0
- package/skills/academic-aio/SKILL.md +408 -0
- package/skills/academic-aio/references/case_studies/kjr_mllm_2025.md +82 -0
- package/skills/academic-aio/references/checklists/AIO_GENERAL.md +354 -0
- package/skills/academic-aio/references/journal_summarybox_templates.yaml +126 -0
- package/skills/academic-aio/references/oac_funding_checklist.yaml +129 -0
- package/skills/academic-aio/references/reporting_guideline_mapping.md +39 -0
- package/skills/academic-aio/references/schema_markup_templates/CodeRepository.jsonld +32 -0
- package/skills/academic-aio/references/schema_markup_templates/Dataset.jsonld +36 -0
- package/skills/academic-aio/references/schema_markup_templates/Person.jsonld +30 -0
- package/skills/academic-aio/references/schema_markup_templates/README.md +43 -0
- package/skills/academic-aio/references/schema_markup_templates/ScholarlyArticle.jsonld +55 -0
- package/skills/academic-aio/scripts/batch_metadata_audit.py +169 -0
- package/skills/academic-aio/scripts/validate_schema.py +118 -0
- package/skills/academic-aio/skill.yml +36 -0
- package/skills/academic-aio/templates/aio_audit_checklist.md.j2 +108 -0
- package/skills/add-journal/SKILL.md +482 -0
- package/skills/add-journal/skill.yml +33 -0
- package/skills/analyze-stats/SKILL.md +598 -0
- package/skills/analyze-stats/references/analysis_guides/missing_data.md +109 -0
- package/skills/analyze-stats/references/analysis_guides/nhis_icd10_mapping.md +247 -0
- package/skills/analyze-stats/references/analysis_guides/propensity_score.md +132 -0
- package/skills/analyze-stats/references/analysis_guides/regression.md +115 -0
- package/skills/analyze-stats/references/analysis_guides/repeated_measures.md +160 -0
- package/skills/analyze-stats/references/analysis_guides/survey_weighted.md +366 -0
- package/skills/analyze-stats/references/analysis_guides/test_selection.md +86 -0
- package/skills/analyze-stats/references/style/figure_style.mplstyle +69 -0
- package/skills/analyze-stats/references/style/theme_publication.R +147 -0
- package/skills/analyze-stats/references/table-standards/journal-profiles/ajr.yaml +51 -0
- package/skills/analyze-stats/references/table-standards/journal-profiles/european_radiology.yaml +55 -0
- package/skills/analyze-stats/references/table-standards/journal-profiles/jama.yaml +66 -0
- package/skills/analyze-stats/references/table-standards/journal-profiles/lancet.yaml +57 -0
- package/skills/analyze-stats/references/table-standards/journal-profiles/nejm.yaml +51 -0
- package/skills/analyze-stats/references/table-standards/journal-profiles/radiology.yaml +66 -0
- package/skills/analyze-stats/references/table-standards/table-standards.md +287 -0
- package/skills/analyze-stats/references/table-standards/table-types/diagnostic_accuracy.md +36 -0
- package/skills/analyze-stats/references/table-standards/table-types/meta_analysis.md +58 -0
- package/skills/analyze-stats/references/table-standards/table-types/model_comparison.md +36 -0
- package/skills/analyze-stats/references/table-standards/table-types/regression_results.md +50 -0
- package/skills/analyze-stats/references/table-standards/table-types/table1_demographics.md +51 -0
- package/skills/analyze-stats/references/table-standards/tool-comparison.md +79 -0
- package/skills/analyze-stats/references/templates/agreement_analysis.py +436 -0
- package/skills/analyze-stats/references/templates/dca_plot.R +237 -0
- package/skills/analyze-stats/references/templates/diagnostic_accuracy.py +401 -0
- package/skills/analyze-stats/references/templates/dta_meta_analysis.R +384 -0
- package/skills/analyze-stats/references/templates/forest_plot.py +412 -0
- package/skills/analyze-stats/references/templates/likert_summary.py +356 -0
- package/skills/analyze-stats/references/templates/meta_analysis.R +365 -0
- package/skills/analyze-stats/references/templates/propensity_score.py +478 -0
- package/skills/analyze-stats/references/templates/regression.py +425 -0
- package/skills/analyze-stats/references/templates/repeated_measures.py +434 -0
- package/skills/analyze-stats/references/templates/sample_size.R +382 -0
- package/skills/analyze-stats/references/templates/survey_weighted_analysis.py +411 -0
- package/skills/analyze-stats/references/templates/survival_analysis.py +325 -0
- package/skills/analyze-stats/references/templates/table1_demographics.py +287 -0
- package/skills/analyze-stats/scripts/check_generated_code.py +335 -0
- package/skills/analyze-stats/skill.yml +38 -0
- package/skills/analyze-stats/tests/fixtures/gen_bad.R +16 -0
- package/skills/analyze-stats/tests/fixtures/gen_bad.py +24 -0
- package/skills/analyze-stats/tests/fixtures/gen_clean.py +21 -0
- package/skills/analyze-stats/tests/test_generated_code.sh +59 -0
- package/skills/analyze-stats/tests/test_survival_template.sh +53 -0
- package/skills/author-strategy/SKILL.md +117 -0
- package/skills/author-strategy/analyze_patterns.py +303 -0
- package/skills/author-strategy/fetch_pubmed.py +374 -0
- package/skills/author-strategy/skill.yml +34 -0
- package/skills/batch-cohort/SKILL.md +223 -0
- package/skills/batch-cohort/references/base_template_knhanes.R +210 -0
- package/skills/batch-cohort/references/batch_template_generator.R +222 -0
- package/skills/batch-cohort/references/variable_coding_registry.md +136 -0
- package/skills/batch-cohort/skill.yml +35 -0
- package/skills/calc-sample-size/SKILL.md +491 -0
- package/skills/calc-sample-size/references/formulas.md +655 -0
- package/skills/calc-sample-size/references/observational_cohort.md +49 -0
- package/skills/calc-sample-size/skill.yml +51 -0
- package/skills/check-reporting/SKILL.md +534 -0
- package/skills/check-reporting/references/LICENSES.md +41 -0
- package/skills/check-reporting/references/checklists/AMSTAR2.md +54 -0
- package/skills/check-reporting/references/checklists/ARRIVE_2.md +234 -0
- package/skills/check-reporting/references/checklists/CARE.md +102 -0
- package/skills/check-reporting/references/checklists/CLAIM_2024.md +128 -0
- package/skills/check-reporting/references/checklists/CLEAR.md +113 -0
- package/skills/check-reporting/references/checklists/CONSORT.md +86 -0
- package/skills/check-reporting/references/checklists/COSMIN_RoB.md +136 -0
- package/skills/check-reporting/references/checklists/GRRAS.md +61 -0
- package/skills/check-reporting/references/checklists/MI_CLEAR_LLM.md +167 -0
- package/skills/check-reporting/references/checklists/MOOSE.md +85 -0
- package/skills/check-reporting/references/checklists/NOS.md +88 -0
- package/skills/check-reporting/references/checklists/PRISMA_2020.md +135 -0
- package/skills/check-reporting/references/checklists/PRISMA_DTA.md +36 -0
- package/skills/check-reporting/references/checklists/PRISMA_P.md +56 -0
- package/skills/check-reporting/references/checklists/PROBAST.md +75 -0
- package/skills/check-reporting/references/checklists/PROBAST_AI.md +130 -0
- package/skills/check-reporting/references/checklists/QUADAS2.md +77 -0
- package/skills/check-reporting/references/checklists/QUADAS_C.md +131 -0
- package/skills/check-reporting/references/checklists/ROBINS_E.md +179 -0
- package/skills/check-reporting/references/checklists/ROBINS_I.md +87 -0
- package/skills/check-reporting/references/checklists/ROBIS.md +114 -0
- package/skills/check-reporting/references/checklists/ROB_ME.md +126 -0
- package/skills/check-reporting/references/checklists/RoB2.md +79 -0
- package/skills/check-reporting/references/checklists/RoB_NMA.md +96 -0
- package/skills/check-reporting/references/checklists/SPIRIT.md +112 -0
- package/skills/check-reporting/references/checklists/SQUIRE_2.md +68 -0
- package/skills/check-reporting/references/checklists/STARD.md +129 -0
- package/skills/check-reporting/references/checklists/STARD_AI.md +211 -0
- package/skills/check-reporting/references/checklists/STROBE.md +80 -0
- package/skills/check-reporting/references/checklists/SWiM.md +33 -0
- package/skills/check-reporting/references/checklists/TRIPOD.md +157 -0
- package/skills/check-reporting/references/checklists/TRIPOD_AI.md +140 -0
- package/skills/check-reporting/references/step4c_registration_timing.md +93 -0
- package/skills/check-reporting/references/step4d_prisma_figure_audit.md +137 -0
- package/skills/check-reporting/scripts/check_checklist_exists.py +183 -0
- package/skills/check-reporting/scripts/check_checklist_version.py +168 -0
- package/skills/check-reporting/scripts/check_framework_naming.py +206 -0
- package/skills/check-reporting/scripts/check_prisma_figure.py +209 -0
- package/skills/check-reporting/scripts/prisma_cascade_check.py +274 -0
- package/skills/check-reporting/skill.yml +41 -0
- package/skills/check-reporting/tests/fixtures/framework_bad.md +8 -0
- package/skills/check-reporting/tests/fixtures/framework_clean.md +7 -0
- package/skills/check-reporting/tests/test_checklist_fail_fast.sh +77 -0
- package/skills/check-reporting/tests/test_checklist_version.sh +72 -0
- package/skills/check-reporting/tests/test_framework_naming.sh +45 -0
- package/skills/check-reporting/tests/test_prisma_cascade.sh +104 -0
- package/skills/clean-data/SKILL.md +180 -0
- package/skills/clean-data/references/cleaning_patterns.md +299 -0
- package/skills/clean-data/references/profiling_template.py +304 -0
- package/skills/clean-data/scripts/check_structural_zero.py +174 -0
- package/skills/clean-data/skill.yml +35 -0
- package/skills/clean-data/tests/fixtures/smoking.csv +8 -0
- package/skills/clean-data/tests/test_structural_zero.sh +49 -0
- package/skills/cross-national/SKILL.md +264 -0
- package/skills/cross-national/skill.yml +37 -0
- package/skills/define-variables/SKILL.md +146 -0
- package/skills/define-variables/references/common_definitions.md +190 -0
- package/skills/define-variables/skill.yml +34 -0
- package/skills/define-variables/templates/variable_operationalization.md +64 -0
- package/skills/deidentify/SKILL.md +203 -0
- package/skills/deidentify/deidentify.py +1224 -0
- package/skills/deidentify/locales/_template.json +45 -0
- package/skills/deidentify/locales/au.json +43 -0
- package/skills/deidentify/locales/ca.json +44 -0
- package/skills/deidentify/locales/cn.json +47 -0
- package/skills/deidentify/locales/de.json +48 -0
- package/skills/deidentify/locales/fr.json +48 -0
- package/skills/deidentify/locales/in.json +48 -0
- package/skills/deidentify/locales/jp.json +48 -0
- package/skills/deidentify/locales/kr.json +48 -0
- package/skills/deidentify/locales/uk.json +45 -0
- package/skills/deidentify/locales/us.json +43 -0
- package/skills/deidentify/references/date_shift_guide.md +82 -0
- package/skills/deidentify/references/hipaa_18_identifiers.md +48 -0
- package/skills/deidentify/references/korean_phi_patterns.md +135 -0
- package/skills/deidentify/skill.yml +43 -0
- package/skills/deidentify/tests/README.md +26 -0
- package/skills/deidentify/tests/test_clean.csv +16 -0
- package/skills/deidentify/tests/test_edge_cases.csv +11 -0
- package/skills/deidentify/tests/test_phi_korean.csv +11 -0
- package/skills/design-ai-benchmarking/SKILL.md +214 -0
- package/skills/design-ai-benchmarking/references/benchmark_export_schema.json +69 -0
- package/skills/design-ai-benchmarking/references/elicitation_rubric_template.md +37 -0
- package/skills/design-ai-benchmarking/skill.yml +38 -0
- package/skills/design-study/SKILL.md +298 -0
- package/skills/design-study/skill.yml +33 -0
- package/skills/fill-icmje-coi/SKILL.md +216 -0
- package/skills/fill-icmje-coi/scripts/fill_icmje_coi.py +140 -0
- package/skills/fill-icmje-coi/skill.yml +35 -0
- package/skills/fill-icmje-coi/templates/icmje_coi_seed_synthetic.docx +0 -0
- package/skills/fill-protocol/SKILL.md +248 -0
- package/skills/fill-protocol/examples/example_irb_template.yaml +53 -0
- package/skills/fill-protocol/references/best_practices.md +121 -0
- package/skills/fill-protocol/scripts/doc_to_docx.py +111 -0
- package/skills/fill-protocol/scripts/fill_form.py +611 -0
- package/skills/fill-protocol/scripts/inspect_template.py +61 -0
- package/skills/fill-protocol/setup.sh +162 -0
- package/skills/fill-protocol/skill.yml +37 -0
- package/skills/find-cohort-gap/SKILL.md +309 -0
- package/skills/find-cohort-gap/references/cohort_profile_template.md +93 -0
- package/skills/find-cohort-gap/references/onepager_template.md +84 -0
- package/skills/find-cohort-gap/references/pattern_scoring_rubric.md +169 -0
- package/skills/find-cohort-gap/references/saturation_query_templates.md +143 -0
- package/skills/find-cohort-gap/skill.yml +35 -0
- package/skills/find-journal/POLICY.md +87 -0
- package/skills/find-journal/SKILL.md +340 -0
- package/skills/find-journal/references/journal_profiles/AJNR.md +29 -0
- package/skills/find-journal/references/journal_profiles/AJR.md +30 -0
- package/skills/find-journal/references/journal_profiles/Abdominal_Radiology.md +30 -0
- package/skills/find-journal/references/journal_profiles/Academic_Radiology.md +30 -0
- package/skills/find-journal/references/journal_profiles/Annals_of_Internal_Medicine.md +33 -0
- package/skills/find-journal/references/journal_profiles/Artificial_Intelligence_in_Medicine.md +28 -0
- package/skills/find-journal/references/journal_profiles/BMC_Medicine.md +31 -0
- package/skills/find-journal/references/journal_profiles/British_Journal_of_Radiology.md +39 -0
- package/skills/find-journal/references/journal_profiles/CVIR.md +30 -0
- package/skills/find-journal/references/journal_profiles/Chest.md +39 -0
- package/skills/find-journal/references/journal_profiles/Clinical_Radiology.md +30 -0
- package/skills/find-journal/references/journal_profiles/Clinical_and_Molecular_Hepatology.md +32 -0
- package/skills/find-journal/references/journal_profiles/Diabetes_Metabolism_Journal.md +36 -0
- package/skills/find-journal/references/journal_profiles/Diagnostic_and_Interventional_Radiology.md +32 -0
- package/skills/find-journal/references/journal_profiles/Endocrinology_and_Metabolism.md +37 -0
- package/skills/find-journal/references/journal_profiles/European_Journal_of_Preventive_Cardiology.md +39 -0
- package/skills/find-journal/references/journal_profiles/European_Radiology.md +29 -0
- package/skills/find-journal/references/journal_profiles/Hepatology_Communications.md +40 -0
- package/skills/find-journal/references/journal_profiles/Hepatology_International.md +37 -0
- package/skills/find-journal/references/journal_profiles/IEEE_JBHI.md +28 -0
- package/skills/find-journal/references/journal_profiles/IEEE_TMI.md +28 -0
- package/skills/find-journal/references/journal_profiles/INSI.md +29 -0
- package/skills/find-journal/references/journal_profiles/Investigative_Radiology.md +25 -0
- package/skills/find-journal/references/journal_profiles/JACC_Advances.md +41 -0
- package/skills/find-journal/references/journal_profiles/JACC_Asia.md +30 -0
- package/skills/find-journal/references/journal_profiles/JACR.md +28 -0
- package/skills/find-journal/references/journal_profiles/JAMA.md +40 -0
- package/skills/find-journal/references/journal_profiles/JAMA_Network_Open.md +30 -0
- package/skills/find-journal/references/journal_profiles/JCSM.md +39 -0
- package/skills/find-journal/references/journal_profiles/JKMS.md +32 -0
- package/skills/find-journal/references/journal_profiles/JMIR.md +29 -0
- package/skills/find-journal/references/journal_profiles/JMIR_Medical_Education.md +29 -0
- package/skills/find-journal/references/journal_profiles/JNIS.md +35 -0
- package/skills/find-journal/references/journal_profiles/JVIR.md +31 -0
- package/skills/find-journal/references/journal_profiles/Journal_of_Biomedical_Informatics.md +29 -0
- package/skills/find-journal/references/journal_profiles/Journal_of_Clinical_Endocrinology_and_Metabolism.md +40 -0
- package/skills/find-journal/references/journal_profiles/Journal_of_Magnetic_Resonance_Imaging.md +30 -0
- package/skills/find-journal/references/journal_profiles/Journal_of_Nuclear_Medicine.md +31 -0
- package/skills/find-journal/references/journal_profiles/Journal_of_Stroke.md +32 -0
- package/skills/find-journal/references/journal_profiles/KJR.md +38 -0
- package/skills/find-journal/references/journal_profiles/Korean_Circulation_Journal.md +38 -0
- package/skills/find-journal/references/journal_profiles/Korean_Journal_of_Internal_Medicine.md +36 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Diabetes_and_Endocrinology.md +40 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Gastroenterology_and_Hepatology.md +49 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Infectious_Diseases.md +38 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Neurology.md +39 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Oncology.md +40 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Psychiatry.md +38 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Public_Health.md +30 -0
- package/skills/find-journal/references/journal_profiles/Lancet_Respiratory_Medicine.md +39 -0
- package/skills/find-journal/references/journal_profiles/Liver_International.md +33 -0
- package/skills/find-journal/references/journal_profiles/Medical_Image_Analysis.md +28 -0
- package/skills/find-journal/references/journal_profiles/NEJM.md +33 -0
- package/skills/find-journal/references/journal_profiles/Nature_Machine_Intelligence.md +31 -0
- package/skills/find-journal/references/journal_profiles/Nature_Medicine.md +39 -0
- package/skills/find-journal/references/journal_profiles/Neuroradiology.md +31 -0
- package/skills/find-journal/references/journal_profiles/Nutrition_Metabolism_and_Cardiovascular_Diseases.md +39 -0
- package/skills/find-journal/references/journal_profiles/PLOS_Medicine.md +32 -0
- package/skills/find-journal/references/journal_profiles/RYAI.md +28 -0
- package/skills/find-journal/references/journal_profiles/Radiology.md +29 -0
- package/skills/find-journal/references/journal_profiles/Skeletal_Radiology.md +31 -0
- package/skills/find-journal/references/journal_profiles/Stroke.md +37 -0
- package/skills/find-journal/references/journal_profiles/The_BMJ.md +31 -0
- package/skills/find-journal/references/journal_profiles/The_Lancet.md +31 -0
- package/skills/find-journal/references/journal_profiles/The_Lancet_Digital_Health.md +29 -0
- package/skills/find-journal/references/journal_profiles/World_Journal_of_Hepatology.md +53 -0
- package/skills/find-journal/references/journal_profiles/npj_Digital_Medicine.md +29 -0
- package/skills/find-journal/skill.yml +34 -0
- package/skills/fulltext-retrieval/SKILL.md +174 -0
- package/skills/fulltext-retrieval/fetch_oa.py +433 -0
- package/skills/fulltext-retrieval/pdf_to_md.py +160 -0
- package/skills/fulltext-retrieval/skill.yml +41 -0
- package/skills/generate-codebook/SKILL.md +155 -0
- package/skills/generate-codebook/references/codebook_schema.md +76 -0
- package/skills/generate-codebook/scripts/generate_codebook.py +278 -0
- package/skills/generate-codebook/skill.yml +35 -0
- package/skills/generate-codebook/tests/test_generate_codebook.sh +76 -0
- package/skills/grant-builder/SKILL.md +251 -0
- package/skills/grant-builder/skill.yml +34 -0
- package/skills/humanize/SKILL.md +251 -0
- package/skills/humanize/references/ai_patterns.md +571 -0
- package/skills/humanize/skill.yml +33 -0
- package/skills/intake-project/SKILL.md +264 -0
- package/skills/intake-project/skill.yml +34 -0
- package/skills/lit-sync/SKILL.md +448 -0
- package/skills/lit-sync/references/locale/ko/note_templates.md +110 -0
- package/skills/lit-sync/skill.yml +52 -0
- package/skills/lit-sync/tests/test_poll_logic.sh +92 -0
- package/skills/ma-scout/SKILL.md +640 -0
- package/skills/ma-scout/references/project_readme_template.md +95 -0
- package/skills/ma-scout/references/project_readme_template_ko.md +82 -0
- package/skills/ma-scout/skill.yml +33 -0
- package/skills/make-figures/SKILL.md +957 -0
- package/skills/make-figures/references/critic_rubrics/data_plot.md +166 -0
- package/skills/make-figures/references/critic_rubrics/flow_diagram.md +169 -0
- package/skills/make-figures/references/design_principles.md +181 -0
- package/skills/make-figures/references/exemplar_diagrams/README.md +65 -0
- package/skills/make-figures/references/exemplar_diagrams/consort/README.md +15 -0
- package/skills/make-figures/references/exemplar_diagrams/consort/template_input.yaml +37 -0
- package/skills/make-figures/references/exemplar_diagrams/consort/template_output.pdf +0 -0
- package/skills/make-figures/references/exemplar_diagrams/consort/template_output.png +0 -0
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- package/skills/self-review/tests/test_confounding_completeness.sh +66 -0
- package/skills/self-review/tests/test_panel_diversity.sh +55 -0
- package/skills/self-review/tests/test_panel_mode.sh +69 -0
- package/skills/self-review/tests/test_reference_adequacy.sh +68 -0
- package/skills/self-review/tests/test_reviewer_team_consistency.sh +138 -0
- package/skills/self-review/tests/test_scope_coherence.sh +46 -0
- package/skills/setup-medsci/SKILL.md +110 -0
- package/skills/setup-medsci/references/setup-checklist.md +51 -0
- package/skills/setup-medsci/skill.yml +30 -0
- package/skills/sync-submission/SKILL.md +382 -0
- package/skills/sync-submission/scripts/author_registry_example.yaml +36 -0
- package/skills/sync-submission/scripts/blind_sweep.py +203 -0
- package/skills/sync-submission/scripts/check_asset_anonymization.py +300 -0
- package/skills/sync-submission/scripts/check_cross_artifact_stale.py +211 -0
- package/skills/sync-submission/scripts/cover_letter_drift_check.py +451 -0
- package/skills/sync-submission/scripts/cross_document_n_check.py +486 -0
- package/skills/sync-submission/scripts/detect_copy_divergence.py +136 -0
- package/skills/sync-submission/scripts/preflight_gate.py +458 -0
- package/skills/sync-submission/scripts/scope_drift_check.py +362 -0
- package/skills/sync-submission/scripts/sync_submission.py +169 -0
- package/skills/sync-submission/skill.yml +43 -0
- package/skills/sync-submission/tests/fixtures/copy_ok.md +5 -0
- package/skills/sync-submission/tests/fixtures/copy_stale.md +5 -0
- package/skills/sync-submission/tests/fixtures/ssot.md +5 -0
- package/skills/sync-submission/tests/test_asset_anonymization.sh +99 -0
- package/skills/sync-submission/tests/test_copy_divergence.sh +44 -0
- package/skills/sync-submission/tests/test_cross_artifact_stale.sh +80 -0
- package/skills/sync-submission/tests/test_cross_document_n.sh +132 -0
- package/skills/sync-submission/tests/test_preflight_gate.sh +112 -0
- package/skills/sync-submission/tests/test_scope_drift.sh +122 -0
- package/skills/sync-submission/tests/test_vN_docx_assertion.sh +51 -0
- package/skills/verify-refs/SKILL.md +177 -0
- package/skills/verify-refs/references/manual_checkpoint_guide.md +100 -0
- package/skills/verify-refs/scripts/verify_cli.sh +62 -0
- package/skills/verify-refs/scripts/verify_refs.py +782 -0
- package/skills/verify-refs/skill.yml +44 -0
- package/skills/verify-refs/tests/fixtures/pagination_placeholder.bib +17 -0
- package/skills/verify-refs/tests/test_pagination_placeholder.sh +42 -0
- package/skills/version-dataset/SKILL.md +143 -0
- package/skills/version-dataset/references/manifest_schema.md +72 -0
- package/skills/version-dataset/scripts/version_dataset.py +242 -0
- package/skills/version-dataset/skill.yml +35 -0
- package/skills/version-dataset/tests/test_version_dataset.sh +52 -0
- package/skills/write-paper/SKILL.md +1148 -0
- package/skills/write-paper/references/exemplar_methods/README.md +38 -0
- package/skills/write-paper/references/exemplar_methods/ai_validation_tripod_claim.md +47 -0
- package/skills/write-paper/references/exemplar_methods/diagnostic_accuracy_stard.md +50 -0
- package/skills/write-paper/references/exemplar_methods/observational_cohort_strobe.md +43 -0
- package/skills/write-paper/references/journal_profiles/AJNR.md +185 -0
- package/skills/write-paper/references/journal_profiles/AJR.md +149 -0
- package/skills/write-paper/references/journal_profiles/Abdominal_Radiology.md +139 -0
- package/skills/write-paper/references/journal_profiles/Academic_Radiology.md +90 -0
- package/skills/write-paper/references/journal_profiles/Annals_of_Internal_Medicine.md +150 -0
- package/skills/write-paper/references/journal_profiles/Artificial_Intelligence_in_Medicine.md +82 -0
- package/skills/write-paper/references/journal_profiles/British_Journal_of_Radiology.md +161 -0
- package/skills/write-paper/references/journal_profiles/CVIR.md +157 -0
- package/skills/write-paper/references/journal_profiles/Chest.md +270 -0
- package/skills/write-paper/references/journal_profiles/Clinical_Radiology.md +160 -0
- package/skills/write-paper/references/journal_profiles/Clinical_and_Molecular_Hepatology.md +147 -0
- package/skills/write-paper/references/journal_profiles/Diabetes_Metabolism_Journal.md +163 -0
- package/skills/write-paper/references/journal_profiles/Diagnostic_and_Interventional_Radiology.md +216 -0
- package/skills/write-paper/references/journal_profiles/Endocrinology_and_Metabolism.md +167 -0
- package/skills/write-paper/references/journal_profiles/European_Journal_of_Preventive_Cardiology.md +192 -0
- package/skills/write-paper/references/journal_profiles/European_Radiology.md +159 -0
- package/skills/write-paper/references/journal_profiles/Hepatology_Communications.md +110 -0
- package/skills/write-paper/references/journal_profiles/Hepatology_International.md +106 -0
- package/skills/write-paper/references/journal_profiles/IEEE_TMI.md +180 -0
- package/skills/write-paper/references/journal_profiles/INSI.md +163 -0
- package/skills/write-paper/references/journal_profiles/Investigative_Radiology.md +86 -0
- package/skills/write-paper/references/journal_profiles/JACC_Advances.md +197 -0
- package/skills/write-paper/references/journal_profiles/JACC_Asia.md +168 -0
- package/skills/write-paper/references/journal_profiles/JACR.md +87 -0
- package/skills/write-paper/references/journal_profiles/JAMA.md +188 -0
- package/skills/write-paper/references/journal_profiles/JAMA_Network_Open.md +170 -0
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- package/skills/write-paper/references/journal_profiles/Journal_of_Clinical_Endocrinology_and_Metabolism.md +191 -0
- package/skills/write-paper/references/journal_profiles/Journal_of_Stroke.md +176 -0
- package/skills/write-paper/references/journal_profiles/KJR.md +185 -0
- package/skills/write-paper/references/journal_profiles/Korean_Circulation_Journal.md +184 -0
- package/skills/write-paper/references/journal_profiles/Korean_Journal_of_Internal_Medicine.md +178 -0
- package/skills/write-paper/references/journal_profiles/Lancet_Gastroenterology_and_Hepatology.md +127 -0
- package/skills/write-paper/references/journal_profiles/Liver_International.md +165 -0
- package/skills/write-paper/references/journal_profiles/Medical_Image_Analysis.md +147 -0
- package/skills/write-paper/references/journal_profiles/NEJM.md +147 -0
- package/skills/write-paper/references/journal_profiles/Nature_Medicine.md +181 -0
- package/skills/write-paper/references/journal_profiles/Neuroradiology.md +151 -0
- package/skills/write-paper/references/journal_profiles/Nutrition_Metabolism_and_Cardiovascular_Diseases.md +184 -0
- package/skills/write-paper/references/journal_profiles/PLOS_Medicine.md +166 -0
- package/skills/write-paper/references/journal_profiles/RYAI.md +124 -0
- package/skills/write-paper/references/journal_profiles/Radiology.md +173 -0
- package/skills/write-paper/references/journal_profiles/Skeletal_Radiology.md +135 -0
- package/skills/write-paper/references/journal_profiles/Stroke.md +210 -0
- package/skills/write-paper/references/journal_profiles/The_BMJ.md +121 -0
- package/skills/write-paper/references/journal_profiles/The_Lancet.md +112 -0
- package/skills/write-paper/references/journal_profiles/The_Lancet_Digital_Health.md +104 -0
- package/skills/write-paper/references/journal_profiles/World_Journal_of_Hepatology.md +106 -0
- package/skills/write-paper/references/journal_profiles/npj_Digital_Medicine.md +93 -0
- package/skills/write-paper/references/paper_types/ai_validation.md +270 -0
- package/skills/write-paper/references/paper_types/animal_study.md +194 -0
- package/skills/write-paper/references/paper_types/case_report.md +237 -0
- package/skills/write-paper/references/paper_types/cross_national.md +328 -0
- package/skills/write-paper/references/paper_types/letter.md +127 -0
- package/skills/write-paper/references/paper_types/meta_analysis.md +181 -0
- package/skills/write-paper/references/paper_types/nhis_cohort.md +297 -0
- package/skills/write-paper/references/paper_types/original_article.md +221 -0
- package/skills/write-paper/references/paper_types/technical_note.md +131 -0
- package/skills/write-paper/references/section_guides/discussion.md +155 -0
- package/skills/write-paper/references/section_guides/introduction.md +108 -0
- package/skills/write-paper/references/section_guides/methods.md +144 -0
- package/skills/write-paper/references/section_guides/results.md +113 -0
- package/skills/write-paper/references/section_guides/step7_1_classical_qc.md +67 -0
- package/skills/write-paper/references/section_guides/step7_4a_audit_recovery.md +74 -0
- package/skills/write-paper/references/section_guides/title_abstract.md +123 -0
- package/skills/write-paper/references/section_templates/methods_statistical.md +147 -0
- package/skills/write-paper/scripts/check_placeholders.py +182 -0
- package/skills/write-paper/skill.yml +48 -0
- package/skills/write-paper/tests/test_placeholders.sh +107 -0
- package/skills/write-protocol/SKILL.md +243 -0
- package/skills/write-protocol/references/ethics_checklist.md +150 -0
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---
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name: find-journal
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description: Journal recommendation engine for medical manuscripts. 2-pass matching against a curated public profile library plus any user-local private profiles, enriched with detailed write-paper profiles for top-5 output. Returns ranked recommendations with scope fit rationale, AI disclosure policy, and homepage links. No cached IF/APC data — users verify current metrics at journal sites.
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triggers: find journal, recommend journal, where to submit, which journal, journal selection, target journal, journal match
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tools: Read, Write, Edit, Grep, Glob
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model: inherit
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---
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# Find Journal Skill
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You are a journal recommendation engine for medical researchers. Given a manuscript's
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abstract, key findings, and study type, you match it against the curated public profile
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library plus any user-local private profiles, and return the top 5 ranked recommendations
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with scope fit rationale. Detailed write-paper profiles enrich the top-5 output when
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available.
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## Communication Rules
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- Communicate with the user in their preferred language.
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- Journal names, scope descriptions, and URLs are always in English.
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- Medical terminology is always in English.
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## Key Directories
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### Compact profiles for matching (two-tier discovery)
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1. **Public library** (shipped with the skill, curated + verified):
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`${CLAUDE_SKILL_DIR}/references/journal_profiles/`
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2. **User-local private library** (per-user, never pushed to git, optional):
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`$HOME/.claude/private-journal-profiles/find-journal/`
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The skill reads both directories and merges the results. Filenames must be unique across
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the two locations; on collision the private file wins (user override).
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### Detail profiles for top-5 enrichment (two-tier discovery)
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1. **Public:** `${CLAUDE_SKILL_DIR}/../write-paper/references/journal_profiles/`
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2. **User-local private:** `$HOME/.claude/private-journal-profiles/write-paper/`
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Same merge rule — private wins on filename collision.
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### Why two tiers?
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Profiles in the public library must meet a hard verification bar (direct source reading of
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the journal's homepage and author guidelines — no inference from adjacent journals, no
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family-policy copy-paste). Profiles that a single user wants for their own workflow but
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that have not cleared the public bar live in the private library. See
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`${CLAUDE_SKILL_DIR}/POLICY.md` for the promotion checklist (private → public).
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---
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## Phase 1: Input Collection
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### Required Inputs
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1. **Abstract text** or key findings summary
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2. **Study type**: original research, meta-analysis, case report, technical note, review, letter, AI validation, diagnostic accuracy, etc.
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### Optional Inputs
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3. **Preferred tier**: Q1 / Q1-Q2 / any (default: any)
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4. **OA preference**: Full OA / Hybrid OK / No preference (default: no preference)
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5. **Field focus**: radiology, medical AI, clinical specialty, methodology, education, general medicine
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6. **Journals to exclude**: list any journals that have previously rejected this manuscript
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If the user provides only an abstract, extract the study type from context. If ambiguous, ask.
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---
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## Phase 2: Theme Extraction
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From the abstract/key findings, extract:
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1. **Disease/condition**: e.g., hepatocellular carcinoma, pulmonary embolism, scoliosis
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2. **Modality/technique**: e.g., CT, MRI, ultrasound, deep learning, meta-analysis
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3. **Methodology**: e.g., retrospective cohort, diagnostic accuracy, systematic review, RCT
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4. **Population**: e.g., pediatric, adult, screening population, surgical patients
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5. **Innovation type**: e.g., new algorithm, clinical validation, workflow improvement, educational tool
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---
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## Phase 3: Profile Loading and Matching (2-Pass)
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### 3.1 Pass 1: Load Compact Profiles
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Read journal profiles from both tiers:
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```
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# Public (shipped with the skill)
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${CLAUDE_SKILL_DIR}/references/journal_profiles/*.md
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# User-local private (optional, may be empty or absent)
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$HOME/.claude/private-journal-profiles/find-journal/*.md
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```
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Merge into a single profile set. If a filename exists in both locations, the private copy
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takes precedence (user override). If the private directory does not exist, proceed with
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public-only — do not fail.
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These are compact profiles (~30 lines each) optimized for matching. Parse each profile's
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Scope, Scope Keywords, Article Types Accepted, Classification (Tier, OA, Field), and
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Special Notes (includes 1-line AI policy summary).
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Do NOT read write-paper profiles during this phase — they are 4-5x larger and contain
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formatting details irrelevant to journal matching.
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### 3.2 Scoring Algorithm
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For each journal, compute a composite score:
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| Factor | Weight | Description |
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|--------|--------|-------------|
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| Scope alignment | 40% | How well the manuscript's themes match the journal's scope and keywords |
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| Study type fit | 25% | Whether the journal accepts this article type and values this methodology |
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| Tier match | 20% | Alignment with user's preferred tier (if specified) |
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| OA match | 10% | Alignment with user's OA preference (if specified) |
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| Special fit | 5% | Bonus for unique alignment with journal's Special Notes |
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### 3.3 Filtering
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Before scoring, exclude:
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- Journals in the user's exclusion list
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- Journals that do not accept the manuscript's study type (e.g., case report to a journal that only takes original research)
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- If case report mode: only keep journals whose Article Types include case reports
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### 3.4 Ranking
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Sort by composite score. Select top 5.
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### 3.5 Pass 2: Enrich Top-5
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For each of the top-5 ranked journals, check both tiers for a detailed write-paper
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profile:
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```
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# Public
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${CLAUDE_SKILL_DIR}/../write-paper/references/journal_profiles/{journal_filename}
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# User-local private
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$HOME/.claude/private-journal-profiles/write-paper/{journal_filename}
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```
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Private takes precedence on collision. If found, read it to extract additional detail
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for the output:
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- Manuscript types and word limits
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- Abstract format and requirements
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- Statistical reporting requirements
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- AI Writing Disclosure Policy (full 5-field version)
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- Common rejection reasons
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This enriches the recommendation output without loading all write-paper profiles.
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If no write-paper profile exists, use the compact profile data only.
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### 3.6 Profile Coverage Advisory
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Before emitting the final output, scan the skill directory for profile-gap TODO files and
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decide whether to append a Coverage Advisory block.
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**What this step protects against.** The recommendation list is bounded by what the public
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and private libraries contain. If a high-value journal is simply missing from both tiers,
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the ranking silently substitutes an adjacent journal and the user never learns that
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a better-fitting target exists. The Coverage Advisory surfaces known gaps and directs the
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user to `/add-journal` (or manual PDF + verification) to close them.
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**Procedure.**
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1. **Locate TODO files.** Glob `${CLAUDE_SKILL_DIR}/TODO_*_profiles.md`. These are
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maintainer-curated gap files, one per field (e.g., `TODO_neurointervention_profiles.md`,
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future: `TODO_pediatric_*`, `TODO_endocrinology_*`). The file must contain a
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`## Field Keywords` section — files without this section are ignored.
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2. **Match against manuscript themes.** For each TODO file, read the Field Keywords
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block. If any keyword (case-insensitive, word-boundary match) appears in the
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manuscript's abstract or in the themes extracted in Phase 2, mark the TODO as
|
|
173
|
+
relevant.
|
|
174
|
+
|
|
175
|
+
3. **Parse the gap list.** From each relevant TODO, extract the journal entries under
|
|
176
|
+
headings matching `## 추가 필요` / `## Missing` / `## Pending` — they are the still-missing
|
|
177
|
+
journals. Exclude any entry already marked completed (lines containing ✅ or
|
|
178
|
+
"추가 완료 / Completed"). Also skip journals listed under `## Private` (waiting on
|
|
179
|
+
private→public promotion).
|
|
180
|
+
|
|
181
|
+
4. **Emit the advisory.** If at least one TODO is relevant and at least one journal
|
|
182
|
+
in it is still missing, append a Coverage Advisory block immediately below the
|
|
183
|
+
top-5 recommendation list and above the Mandatory Disclaimer. If no TODO is
|
|
184
|
+
relevant, skip this block entirely — no false alarms.
|
|
185
|
+
|
|
186
|
+
**Output format (when emitted).**
|
|
187
|
+
|
|
188
|
+
```
|
|
189
|
+
---
|
|
190
|
+
### ⚠️ Profile Coverage Advisory — {field name}
|
|
191
|
+
|
|
192
|
+
Your manuscript matches keywords for the **{field name}** field, and the public profile
|
|
193
|
+
library has known gaps here. The following journals may be strong-fit candidates that did
|
|
194
|
+
not appear in the top-5 only because they are not yet in the library:
|
|
195
|
+
|
|
196
|
+
- **{Journal 1}** ({Publisher}) — {1-line reason from TODO entry}
|
|
197
|
+
- **{Journal 2}** ({Publisher}) — {1-line reason from TODO entry}
|
|
198
|
+
- ...
|
|
199
|
+
|
|
200
|
+
To add any of them to the public library:
|
|
201
|
+
|
|
202
|
+
1. Open the journal's author-guidelines page and save it as PDF (or paste the text).
|
|
203
|
+
2. Invoke `/add-journal` with the PDF — it transcribes the Identity / Scope / Article
|
|
204
|
+
Types / AI policy fields directly from the source and verifies the ISSN against
|
|
205
|
+
`portal.issn.org`, per `skills/find-journal/POLICY.md`.
|
|
206
|
+
3. After the new profile lands in `references/journal_profiles/`, re-run `/find-journal`
|
|
207
|
+
to see the updated ranking.
|
|
208
|
+
|
|
209
|
+
TODO source: `skills/find-journal/{TODO filename}`
|
|
210
|
+
---
|
|
211
|
+
```
|
|
212
|
+
|
|
213
|
+
**Guardrails.**
|
|
214
|
+
|
|
215
|
+
- Do not fabricate journals, publishers, or rationale. Copy the TODO entry verbatim (or
|
|
216
|
+
paraphrase minimally from the same line).
|
|
217
|
+
- Do not promote a still-private profile into the advisory — private profiles are by
|
|
218
|
+
definition not production-ready.
|
|
219
|
+
- Keep the advisory concise (≤10 missing journals per field). If a TODO file lists more,
|
|
220
|
+
show the first 10 in priority order and add a "... and {N} more in the TODO file" line.
|
|
221
|
+
- The advisory is informational. It does not change the top-5 ranking or its scores.
|
|
222
|
+
|
|
223
|
+
---
|
|
224
|
+
|
|
225
|
+
## Phase 4: Output
|
|
226
|
+
|
|
227
|
+
For each of the top 5 recommended journals, present:
|
|
228
|
+
|
|
229
|
+
```
|
|
230
|
+
### Rank [N]: [Journal Name] ([Tier])
|
|
231
|
+
|
|
232
|
+
**Scope fit:** [2-3 sentences explaining why this manuscript matches this journal's scope.
|
|
233
|
+
Reference specific keywords, disease areas, or methodological preferences from the profile.]
|
|
234
|
+
|
|
235
|
+
**Article types accepted:** [relevant types from profile]
|
|
236
|
+
|
|
237
|
+
**Open Access:** [Full OA / Hybrid / Subscription]
|
|
238
|
+
|
|
239
|
+
**Homepage:** [URL]
|
|
240
|
+
**Author guidelines:** [URL]
|
|
241
|
+
|
|
242
|
+
**AI disclosure:** [Required / Recommended / Not specified] — [brief summary of permitted scope and disclosure location, if available in profile]
|
|
243
|
+
```
|
|
244
|
+
|
|
245
|
+
After all 5 recommendations, add a brief comparison note (2-3 sentences) highlighting
|
|
246
|
+
the key tradeoffs between the top choices (e.g., scope breadth vs. specialty depth,
|
|
247
|
+
tier vs. acceptance likelihood).
|
|
248
|
+
|
|
249
|
+
If Phase 3.6 produced a Coverage Advisory, insert it immediately after the comparison
|
|
250
|
+
note and before the Mandatory Disclaimer.
|
|
251
|
+
|
|
252
|
+
---
|
|
253
|
+
|
|
254
|
+
## Mandatory Disclaimer
|
|
255
|
+
|
|
256
|
+
Always append this disclaimer at the bottom of every recommendation output:
|
|
257
|
+
|
|
258
|
+
```
|
|
259
|
+
---
|
|
260
|
+
**Important Disclaimer**
|
|
261
|
+
|
|
262
|
+
Impact Factor, APC fees, acceptance rates, and turnaround times change frequently
|
|
263
|
+
and are subject to copyright restrictions. Please verify current values directly
|
|
264
|
+
at each journal's homepage before making your submission decision.
|
|
265
|
+
|
|
266
|
+
Recommended verification sources:
|
|
267
|
+
- Journal Citation Reports (JCR) via institutional access: for Impact Factor
|
|
268
|
+
- Journal homepage -> Author Guidelines: for current APC and formatting requirements
|
|
269
|
+
- Clarivate Master Journal List: for indexing status
|
|
270
|
+
```
|
|
271
|
+
|
|
272
|
+
---
|
|
273
|
+
|
|
274
|
+
## Special Modes
|
|
275
|
+
|
|
276
|
+
### Post-Rejection Mode
|
|
277
|
+
|
|
278
|
+
When the user indicates a manuscript was rejected from a specific journal:
|
|
279
|
+
|
|
280
|
+
1. Exclude the rejecting journal from recommendations
|
|
281
|
+
2. Prioritize journals at the **same tier or one tier lower** than the rejecting journal
|
|
282
|
+
3. If rejected from Q1, recommend mix of Q1 (different scope angle) and strong Q2
|
|
283
|
+
4. In the scope fit explanation, note how the recommendation differs from the rejected journal's focus
|
|
284
|
+
5. Suggest any scope adjustments that might improve fit for the new target
|
|
285
|
+
|
|
286
|
+
### Case Report Mode
|
|
287
|
+
|
|
288
|
+
When study type is "case report":
|
|
289
|
+
|
|
290
|
+
1. Filter the compact profiles to only journals whose Article Types include case reports
|
|
291
|
+
2. Prioritize journals known for valuing educational or rare cases
|
|
292
|
+
3. If fewer than 5 journals accept case reports, note this and suggest the user consider
|
|
293
|
+
case-report-specific journals outside the profile set
|
|
294
|
+
|
|
295
|
+
### Cross-Skill Integration
|
|
296
|
+
|
|
297
|
+
This skill feeds into other skills in the pipeline:
|
|
298
|
+
|
|
299
|
+
- **write-paper Phase 8+**: Once a target journal is selected, the write-paper skill
|
|
300
|
+
uses the journal profile for cover letter drafting and formatting
|
|
301
|
+
- **self-review**: The selected journal's scope and requirements inform the self-review
|
|
302
|
+
checklist priorities
|
|
303
|
+
- **check-reporting**: The journal's preferred reporting guidelines are passed to
|
|
304
|
+
check-reporting for compliance verification
|
|
305
|
+
|
|
306
|
+
When called from write-paper or another skill, accept the abstract and study type
|
|
307
|
+
from the calling context and skip redundant input collection.
|
|
308
|
+
|
|
309
|
+
### Submission Directory Scaffolding
|
|
310
|
+
|
|
311
|
+
When the user selects a target journal from the recommendations, create the
|
|
312
|
+
`submission/{journal_short}/` directory structure:
|
|
313
|
+
|
|
314
|
+
```
|
|
315
|
+
submission/
|
|
316
|
+
└── {journal_short}/ # e.g., radiology_ai/
|
|
317
|
+
├── cover_letter.md # Generated by /write-paper Phase 8+
|
|
318
|
+
├── checklist.md # Journal-specific submission checklist
|
|
319
|
+
└── peer_review.md # Generated by /peer-review (journal scope-aware)
|
|
320
|
+
```
|
|
321
|
+
|
|
322
|
+
The `{journal_short}` name uses lowercase with underscores (e.g., `radiology_ai`,
|
|
323
|
+
`european_radiology`, `ajr`). Create the directory and report the path to the user
|
|
324
|
+
so subsequent skills (`/write-paper` Phase 8+, `/peer-review`) know where to write.
|
|
325
|
+
|
|
326
|
+
---
|
|
327
|
+
|
|
328
|
+
## Error Handling
|
|
329
|
+
|
|
330
|
+
- Count the compact profiles actually found (public + private after merge) at runtime and note the total in the output — never hard-code the count
|
|
331
|
+
- If either tier directory is missing or empty, proceed with the other tier and note which tier was unavailable
|
|
332
|
+
- If the write-paper profiles directory is not accessible for Pass 2 enrichment, output recommendations using compact profile data only
|
|
333
|
+
- If no journals match after filtering, relax filters (remove OA constraint first, then tier) and re-score
|
|
334
|
+
- Never fabricate journal information not present in the profiles
|
|
335
|
+
|
|
336
|
+
## Anti-Hallucination
|
|
337
|
+
|
|
338
|
+
- **Never fabricate file paths, URLs, DOIs, or package names.** Verify existence before recommending.
|
|
339
|
+
- **Never invent journal metadata, impact factors, or submission policies** without verification at the journal's website.
|
|
340
|
+
- If a tool, package, or resource does not exist or you are unsure, say so explicitly rather than guessing.
|
|
@@ -0,0 +1,29 @@
|
|
|
1
|
+
# American Journal of Neuroradiology
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** AJNR Am J Neuroradiol
|
|
5
|
+
- **Publisher:** American Society of Neuroradiology (ASNR)
|
|
6
|
+
- **ISSN:** 0195-6108 / 1936-959X
|
|
7
|
+
- **Homepage:** https://www.ajnr.org/
|
|
8
|
+
- **Author guidelines:** https://www.ajnr.org/page/authors
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
AJNR publishes original research, reviews, and technical innovations in diagnostic and interventional neuroradiology, covering brain, spine, and head/neck imaging across all modalities including advanced MRI techniques, functional imaging, and AI applications in neuroradiology.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
neuroradiology, brain imaging, spine imaging, head and neck imaging, cerebrovascular disease, stroke imaging, brain tumor, glioma, MR spectroscopy, diffusion tensor imaging, functional MRI, pediatric neuroimaging, neurodegenerative disease, white matter disease, AI neuroradiology, perfusion imaging
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Research
|
|
18
|
+
- Review Article
|
|
19
|
+
- Technical Note
|
|
20
|
+
- Case Report
|
|
21
|
+
- Letter to the Editor
|
|
22
|
+
|
|
23
|
+
## Classification
|
|
24
|
+
- **Tier:** Q1
|
|
25
|
+
- **Open Access:** Hybrid
|
|
26
|
+
- **Field:** Neuroradiology
|
|
27
|
+
|
|
28
|
+
## Special Notes
|
|
29
|
+
AJNR is the flagship journal of the American Society of Neuroradiology and covers both diagnostic and interventional neuroradiology (though purely interventional papers may fit INSI better). Requires a unique "What This Adds to the Published Literature" box with 3 bullet points. AI policy: follows ICMJE — disclose AI use in Methods.
|
|
@@ -0,0 +1,30 @@
|
|
|
1
|
+
# American Journal of Roentgenology
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** AJR Am J Roentgenol
|
|
5
|
+
- **Publisher:** American Roentgen Ray Society (ARRS)
|
|
6
|
+
- **ISSN:** 0361-803X / 1546-3141
|
|
7
|
+
- **Homepage:** https://www.ajronline.org/
|
|
8
|
+
- **Author guidelines:** https://www.ajronline.org/page/authors
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
AJR publishes original research, reviews, and technical innovations across all subspecialties of diagnostic radiology, with strong emphasis on clinical imaging practice, diagnostic accuracy studies, and AI applications in medical imaging.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
diagnostic radiology, body imaging, CT, MRI, ultrasound, abdominal imaging, thoracic imaging, musculoskeletal imaging, breast imaging, genitourinary imaging, pediatric radiology, AI in radiology, diagnostic accuracy, imaging biomarkers, contrast media, interventional radiology
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Research
|
|
18
|
+
- Brief Report
|
|
19
|
+
- Review Article
|
|
20
|
+
- Pictorial Essay
|
|
21
|
+
- Technical Innovation
|
|
22
|
+
- Letter to the Editor
|
|
23
|
+
|
|
24
|
+
## Classification
|
|
25
|
+
- **Tier:** Q1
|
|
26
|
+
- **Open Access:** Hybrid
|
|
27
|
+
- **Field:** Radiology (general)
|
|
28
|
+
|
|
29
|
+
## Special Notes
|
|
30
|
+
AJR is one of the oldest and most widely read general radiology journals, published by ARRS since 1906. It requires both a "What Does This Article Add?" box and "Key Points" for original research. Strong emphasis on clinical relevance and practical applicability of findings. AI policy: follows ICMJE — disclose AI use in Methods.
|
|
@@ -0,0 +1,30 @@
|
|
|
1
|
+
# Abdominal Radiology
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** Abdom Radiol
|
|
5
|
+
- **Publisher:** Springer Nature (Society of Abdominal Radiology)
|
|
6
|
+
- **ISSN:** 2366-004X / 2366-0058
|
|
7
|
+
- **Homepage:** https://www.springer.com/journal/261
|
|
8
|
+
- **Author guidelines:** https://www.springer.com/journal/261/submission-guidelines
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
Abdominal Radiology publishes original research, reviews, and case studies focused on imaging of the abdomen and pelvis, including the gastrointestinal tract, liver, pancreas, biliary system, kidneys, adrenal glands, and genitourinary system. All imaging modalities are covered, with emphasis on CT, MRI, and ultrasound of abdominal organs.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
abdominal imaging, liver imaging, pancreas imaging, renal imaging, gastrointestinal imaging, CT abdomen, MRI abdomen, hepatocellular carcinoma, colorectal cancer, kidney tumor, adrenal imaging, biliary imaging, pelvic imaging, genitourinary imaging, contrast-enhanced ultrasound
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Article
|
|
18
|
+
- Review Article
|
|
19
|
+
- Pictorial Essay
|
|
20
|
+
- Case Report (as Brief Report)
|
|
21
|
+
- Technical Innovation
|
|
22
|
+
- Letter to the Editor
|
|
23
|
+
|
|
24
|
+
## Classification
|
|
25
|
+
- **Tier:** Q2
|
|
26
|
+
- **Open Access:** Hybrid (Springer transformative agreements)
|
|
27
|
+
- **Field:** Radiology / Abdominal imaging
|
|
28
|
+
|
|
29
|
+
## Special Notes
|
|
30
|
+
Abdominal Radiology is the official journal of the Society of Abdominal Radiology (SAR). It was formed by the merger of the abdominal imaging sections of Journal of Computer Assisted Tomography and the former Abdominal Imaging journal. The journal regularly publishes themed issues and disease-focused supplements. It is a strong home for LI-RADS, PI-RADS, and other structured reporting studies.
|
|
@@ -0,0 +1,30 @@
|
|
|
1
|
+
# Academic Radiology
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** Acad Radiol
|
|
5
|
+
- **Publisher:** Elsevier (Association of Academic Radiology)
|
|
6
|
+
- **ISSN:** 1076-6332 / 1878-4046
|
|
7
|
+
- **Homepage:** https://www.academicradiology.org/
|
|
8
|
+
- **Author guidelines:** https://www.elsevier.com/journals/academic-radiology/1076-6332/guide-for-authors
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
Academic Radiology publishes original investigations, clinical reviews, and innovations in radiology education, health services research, imaging informatics, and quality improvement, with emphasis on the academic mission of radiology departments.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
radiology education, health services research, imaging informatics, quality improvement, AI in radiology, medical imaging, radiology training, diagnostic accuracy, imaging policy, radiology workforce, machine learning, patient safety, clinical decision support, imaging utilization, evidence-based radiology
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Investigation
|
|
18
|
+
- Clinical Review / Systematic Review
|
|
19
|
+
- Innovations
|
|
20
|
+
- Perspectives
|
|
21
|
+
- White Papers
|
|
22
|
+
- Letter to the Editor
|
|
23
|
+
|
|
24
|
+
## Classification
|
|
25
|
+
- **Tier:** Q1
|
|
26
|
+
- **Open Access:** Hybrid
|
|
27
|
+
- **Field:** Radiology / Education / Health services
|
|
28
|
+
|
|
29
|
+
## Special Notes
|
|
30
|
+
Academic Radiology is the official journal of the Association of University Radiologists (AUR) and the Alliance of Medical Student Educators in Radiology (AMSER). It uniquely bridges clinical radiology research with education, informatics, and practice management. Double-blind review process with mandatory AI declaration. AI policy: language editing only, Methods disclosure required per ICMJE.
|
|
@@ -0,0 +1,33 @@
|
|
|
1
|
+
# Annals of Internal Medicine
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** Ann Intern Med
|
|
5
|
+
- **Publisher:** American College of Physicians (ACP)
|
|
6
|
+
- **ISSN:** 0003-4819 / 1539-3704
|
|
7
|
+
- **Homepage:** https://www.acpjournals.org/journal/aim
|
|
8
|
+
- **Author guidelines:** https://www.acpjournals.org/journal/aim/authors
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
Annals of Internal Medicine publishes original research, systematic reviews, clinical guidelines, and essays relevant to internal medicine and its subspecialties. It values rigorous methodology, clinical relevance, and findings that directly inform patient care. Known for publishing the TRIPOD and STARD statements, the journal has strong standards for diagnostic accuracy and prediction model reporting.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
internal medicine, clinical outcomes, diagnostic accuracy, prediction models, systematic review, evidence-based medicine, screening, therapeutics, prevention, health services research, quality improvement, clinical guidelines, patient safety, epidemiology, biostatistics
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Research
|
|
18
|
+
- Systematic Review
|
|
19
|
+
- Research Letter
|
|
20
|
+
- Review
|
|
21
|
+
- Ideas and Opinions
|
|
22
|
+
- Clinical Guidelines
|
|
23
|
+
- In the Clinic
|
|
24
|
+
- Beyond the Guidelines
|
|
25
|
+
- On Being a Doctor (narrative)
|
|
26
|
+
|
|
27
|
+
## Classification
|
|
28
|
+
- **Tier:** Q1
|
|
29
|
+
- **Open Access:** Hybrid (optional OA)
|
|
30
|
+
- **Field:** General / internal medicine
|
|
31
|
+
|
|
32
|
+
## Special Notes
|
|
33
|
+
Annals is the only major general medical journal to require a "Limitation" heading in the structured abstract. It enforces double-blind peer review with dedicated statistical reviewers. Known for rigorous TRIPOD compliance in prediction model papers. If rejected, authors can request transfer to ACP's Annals of Family Medicine. Visual abstracts are encouraged for social media visibility. The journal also publishes "Summaries for Patients" companion pieces for all original research.
|
package/skills/find-journal/references/journal_profiles/Artificial_Intelligence_in_Medicine.md
ADDED
|
@@ -0,0 +1,28 @@
|
|
|
1
|
+
# Artificial Intelligence in Medicine
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** Artif Intell Med
|
|
5
|
+
- **Publisher:** Elsevier
|
|
6
|
+
- **ISSN:** 0933-3657 / 1873-2860
|
|
7
|
+
- **Homepage:** https://www.sciencedirect.com/journal/artificial-intelligence-in-medicine
|
|
8
|
+
- **Author guidelines:** https://www.elsevier.com/journals/artificial-intelligence-in-medicine/0933-3657/guide-for-authors
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
Publishes original research on AI techniques applied to medicine, emphasizing methodological novelty beyond mere application of known algorithms to medical data. Covers knowledge-based systems, machine learning, NLP, and decision support with demonstrated clinical relevance.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
artificial intelligence, machine learning, clinical decision support, natural language processing, knowledge representation, medical informatics, deep learning, explainable AI, predictive modeling, electronic health records, computer-aided diagnosis, clinical NLP, Bayesian networks, reinforcement learning, medical reasoning
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Research
|
|
18
|
+
- Methodological Review/Survey
|
|
19
|
+
- Position Paper
|
|
20
|
+
- Letter to the Editor
|
|
21
|
+
|
|
22
|
+
## Classification
|
|
23
|
+
- **Tier:** Q1
|
|
24
|
+
- **Open Access:** Hybrid
|
|
25
|
+
- **Field:** Medical AI / Health informatics
|
|
26
|
+
|
|
27
|
+
## Special Notes
|
|
28
|
+
Premier AI-in-medicine journal requiring genuine methodological novelty — not just applying existing algorithms to medical data. Clinical assessment strongly recommended. Single-blind review; median first decision ~12 days. AI policy: AI-generated images not permitted in artwork; follows ICMJE for AI text disclosure.
|
|
@@ -0,0 +1,31 @@
|
|
|
1
|
+
# BMC Medicine
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** BMC Med
|
|
5
|
+
- **Publisher:** BioMed Central (Springer Nature)
|
|
6
|
+
- **ISSN:** 1741-7015
|
|
7
|
+
- **Homepage:** https://bmcmedicine.biomedcentral.com/
|
|
8
|
+
- **Author guidelines:** https://bmcmedicine.biomedcentral.com/submission-guidelines
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
BMC Medicine is a broadly scoped, open access journal that publishes outstanding and influential research in all areas of clinical practice, translational medicine, medical and health science, and global health. It prioritizes studies that advance clinical understanding, inform health policy, or provide important evidence synthesis relevant to a wide medical audience.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
clinical research, translational medicine, global health, epidemiology, public health, systematic review, meta-analysis, clinical trials, health policy, evidence synthesis, precision medicine, infectious disease, chronic disease, health services, diagnostic accuracy
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Research Article
|
|
18
|
+
- Systematic Review and Meta-Analysis
|
|
19
|
+
- Research in Context (commissioned)
|
|
20
|
+
- Opinion
|
|
21
|
+
- Commentary
|
|
22
|
+
- Correspondence
|
|
23
|
+
- Study Protocol
|
|
24
|
+
|
|
25
|
+
## Classification
|
|
26
|
+
- **Tier:** Q1
|
|
27
|
+
- **Open Access:** Full OA (APC ~$3,690)
|
|
28
|
+
- **Field:** General medicine
|
|
29
|
+
|
|
30
|
+
## Special Notes
|
|
31
|
+
BMC Medicine is one of the leading fully OA general medicine journals (IF ~7-9). Fast peer review (~30 days first decision). Registered reports supported. Strong in systematic reviews and multi-site clinical studies. EQUATOR network reporting guidelines strictly enforced. Accepts transfers from other BMC journals. AI policy: follows ICMJE — disclose AI use in Methods.
|
|
@@ -0,0 +1,39 @@
|
|
|
1
|
+
# British Journal of Radiology
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** BJR
|
|
5
|
+
- **Publisher:** Oxford University Press (British Institute of Radiology)
|
|
6
|
+
- **ISSN:** 0007-1285 / 1748-880X
|
|
7
|
+
- **Homepage:** https://academic.oup.com/bjr
|
|
8
|
+
- **Author guidelines:** https://academic.oup.com/bjr/pages/author-guidelines
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
BJR publishes original research, reviews, and pictorial reviews across all subspecialties of diagnostic radiology, interventional radiology, nuclear medicine, radiation oncology, and radiation physics, with emphasis on clinical research, methodology, and translational radiology and an explicit "Advances in knowledge" novelty framing.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
diagnostic radiology, interventional radiology, nuclear medicine, radiation oncology, radiation physics, CT, MRI, ultrasound, PET, clinical radiology, translational imaging, advances in knowledge, methodology, multi-center radiology
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Research Article
|
|
18
|
+
- Review
|
|
19
|
+
- Systematic Review
|
|
20
|
+
- Pictorial Review
|
|
21
|
+
- Guidelines
|
|
22
|
+
- Short Communication
|
|
23
|
+
- Commentary
|
|
24
|
+
- Letter to the Editor
|
|
25
|
+
|
|
26
|
+
## Classification
|
|
27
|
+
- **Tier:** Q2 (general radiology; verify current JCR rank)
|
|
28
|
+
- **Open Access:** Hybrid (optional CC BY / CC BY-NC; APC ~£2,393)
|
|
29
|
+
- **Field:** Radiology (general; includes physics + radiation oncology)
|
|
30
|
+
|
|
31
|
+
## Special Notes
|
|
32
|
+
British Institute of Radiology flagship; UK/European general-radiology readership; double-anonymized peer review (blind all upload files except title page); structured abstract requires the BJR-specific "Advances in knowledge" heading. AI policy: mandatory disclosure in both cover letter AND Methods/Acknowledgements; AI tools cannot be listed as authors; AI image generation must be disclosed.
|
|
33
|
+
|
|
34
|
+
|
|
35
|
+
---
|
|
36
|
+
|
|
37
|
+
## Verification
|
|
38
|
+
- **Source:** https://academic.oup.com/bjr/pages/author-guidelines
|
|
39
|
+
- **Date:** 2026-05-21
|
|
@@ -0,0 +1,30 @@
|
|
|
1
|
+
# CardioVascular and Interventional Radiology
|
|
2
|
+
|
|
3
|
+
## Identity
|
|
4
|
+
- **Abbreviation:** Cardiovasc Intervent Radiol
|
|
5
|
+
- **Publisher:** Springer Nature (CIRSE — Cardiovascular and Interventional Radiological Society of Europe)
|
|
6
|
+
- **ISSN:** 0174-1551 / 1432-086X
|
|
7
|
+
- **Homepage:** https://www.springer.com/journal/270
|
|
8
|
+
- **Author guidelines:** https://www.springer.com/journal/270/submission-guidelines
|
|
9
|
+
|
|
10
|
+
## Scope
|
|
11
|
+
CVIR publishes original research, reviews, meta-analyses, and case reports on all aspects of cardiovascular and interventional radiology. Coverage includes vascular interventions, tumor ablation, embolization, drainage procedures, CBCT-guided interventions, and image-guided minimally invasive therapies. The journal emphasizes clinical outcomes, technical innovation, and evidence synthesis in IR practice.
|
|
12
|
+
|
|
13
|
+
## Scope Keywords
|
|
14
|
+
interventional radiology, embolization, ablation, vascular intervention, CBCT, cone-beam CT, drainage, stenting, angioplasty, thrombolysis, TACE, radioembolization, image-guided therapy, percutaneous biopsy, venous access, portal vein embolization, IR outcomes
|
|
15
|
+
|
|
16
|
+
## Article Types Accepted
|
|
17
|
+
- Original Article
|
|
18
|
+
- Review Article
|
|
19
|
+
- Systematic Review / Meta-Analysis
|
|
20
|
+
- Technical Note
|
|
21
|
+
- Case Report
|
|
22
|
+
- Letter to the Editor
|
|
23
|
+
|
|
24
|
+
## Classification
|
|
25
|
+
- **Tier:** Q2
|
|
26
|
+
- **Open Access:** Hybrid (Springer transformative agreements)
|
|
27
|
+
- **Field:** Radiology / Interventional radiology
|
|
28
|
+
|
|
29
|
+
## Special Notes
|
|
30
|
+
CVIR is the official journal of CIRSE (Cardiovascular and Interventional Radiological Society of Europe). It readily accepts systematic reviews and meta-analyses of IR procedures. Complication reporting must use SIR classification or Clavien-Dindo grading. Technical and clinical success must be explicitly defined. The journal has a European and international readership. For North American-focused IR studies, consider JVIR as an alternative.
|