opencode-knowledge-work 0.0.0-stage → 0.1.0

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.
Files changed (472) hide show
  1. package/LICENSE +212 -0
  2. package/README.md +124 -2
  3. package/content/bio-research/.mcp.json +48 -0
  4. package/content/bio-research/CONNECTORS.md +23 -0
  5. package/content/bio-research/LICENSE +202 -0
  6. package/content/bio-research/README.md +83 -0
  7. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/LICENSE.txt +201 -0
  8. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/SKILL.md +280 -0
  9. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/asm_schema_overview.md +226 -0
  10. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/field_classification_guide.md +503 -0
  11. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/flattening_guide.md +254 -0
  12. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/supported_instruments.md +151 -0
  13. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/requirements.txt +26 -0
  14. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/convert_to_asm.py +543 -0
  15. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/export_parser.py +481 -0
  16. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/flatten_asm.py +254 -0
  17. package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/validate_asm.py +1102 -0
  18. package/content/bio-research/skills/bio-research-nextflow-development/LICENSE.txt +201 -0
  19. package/content/bio-research/skills/bio-research-nextflow-development/SKILL.md +290 -0
  20. package/content/bio-research/skills/bio-research-nextflow-development/references/geo-sra-acquisition.md +416 -0
  21. package/content/bio-research/skills/bio-research-nextflow-development/references/installation.md +96 -0
  22. package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/atacseq.md +138 -0
  23. package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/rnaseq.md +118 -0
  24. package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/sarek.md +145 -0
  25. package/content/bio-research/skills/bio-research-nextflow-development/references/troubleshooting.md +137 -0
  26. package/content/bio-research/skills/bio-research-nextflow-development/scripts/check_environment.py +452 -0
  27. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/genomes.yaml +148 -0
  28. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/atacseq.yaml +187 -0
  29. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/rnaseq.yaml +147 -0
  30. package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/sarek.yaml +233 -0
  31. package/content/bio-research/skills/bio-research-nextflow-development/scripts/detect_data_type.py +300 -0
  32. package/content/bio-research/skills/bio-research-nextflow-development/scripts/generate_samplesheet.py +455 -0
  33. package/content/bio-research/skills/bio-research-nextflow-development/scripts/manage_genomes.py +521 -0
  34. package/content/bio-research/skills/bio-research-nextflow-development/scripts/sra_geo_fetch.py +732 -0
  35. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/__init__.py +69 -0
  36. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/file_discovery.py +189 -0
  37. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/ncbi_utils.py +808 -0
  38. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/sample_inference.py +290 -0
  39. package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/validators.py +256 -0
  40. package/content/bio-research/skills/bio-research-scientific-problem-selection/LICENSE.txt +201 -0
  41. package/content/bio-research/skills/bio-research-scientific-problem-selection/SKILL.md +269 -0
  42. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/01-intuition-pumps.md +264 -0
  43. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/02-risk-assessment.md +323 -0
  44. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/03-optimization-function.md +481 -0
  45. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/04-parameter-strategy.md +396 -0
  46. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/05-decision-tree.md +85 -0
  47. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/06-adversity-planning.md +123 -0
  48. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/07-problem-inversion.md +152 -0
  49. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/08-integration-synthesis.md +173 -0
  50. package/content/bio-research/skills/bio-research-scientific-problem-selection/references/09-meta-framework.md +504 -0
  51. package/content/bio-research/skills/bio-research-scvi-tools/LICENSE.txt +201 -0
  52. package/content/bio-research/skills/bio-research-scvi-tools/SKILL.md +155 -0
  53. package/content/bio-research/skills/bio-research-scvi-tools/references/atac_peakvi.md +398 -0
  54. package/content/bio-research/skills/bio-research-scvi-tools/references/batch_correction_sysvi.md +417 -0
  55. package/content/bio-research/skills/bio-research-scvi-tools/references/citeseq_totalvi.md +420 -0
  56. package/content/bio-research/skills/bio-research-scvi-tools/references/data_preparation.md +286 -0
  57. package/content/bio-research/skills/bio-research-scvi-tools/references/environment_setup.md +254 -0
  58. package/content/bio-research/skills/bio-research-scvi-tools/references/label_transfer.md +373 -0
  59. package/content/bio-research/skills/bio-research-scvi-tools/references/multiome_multivi.md +384 -0
  60. package/content/bio-research/skills/bio-research-scvi-tools/references/rna_velocity_velovi.md +410 -0
  61. package/content/bio-research/skills/bio-research-scvi-tools/references/scarches_mapping.md +401 -0
  62. package/content/bio-research/skills/bio-research-scvi-tools/references/scrna_integration.md +429 -0
  63. package/content/bio-research/skills/bio-research-scvi-tools/references/spatial_deconvolution.md +438 -0
  64. package/content/bio-research/skills/bio-research-scvi-tools/references/troubleshooting.md +420 -0
  65. package/content/bio-research/skills/bio-research-scvi-tools/scripts/cluster_embed.py +212 -0
  66. package/content/bio-research/skills/bio-research-scvi-tools/scripts/differential_expression.py +220 -0
  67. package/content/bio-research/skills/bio-research-scvi-tools/scripts/integrate_datasets.py +237 -0
  68. package/content/bio-research/skills/bio-research-scvi-tools/scripts/model_utils.py +634 -0
  69. package/content/bio-research/skills/bio-research-scvi-tools/scripts/prepare_data.py +169 -0
  70. package/content/bio-research/skills/bio-research-scvi-tools/scripts/train_model.py +370 -0
  71. package/content/bio-research/skills/bio-research-scvi-tools/scripts/transfer_labels.py +224 -0
  72. package/content/bio-research/skills/bio-research-scvi-tools/scripts/validate_adata.py +397 -0
  73. package/content/bio-research/skills/bio-research-single-cell-rna-qc/LICENSE.txt +201 -0
  74. package/content/bio-research/skills/bio-research-single-cell-rna-qc/SKILL.md +175 -0
  75. package/content/bio-research/skills/bio-research-single-cell-rna-qc/references/scverse_qc_guidelines.md +186 -0
  76. package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_analysis.py +232 -0
  77. package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_core.py +233 -0
  78. package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_plotting.py +235 -0
  79. package/content/bio-research/skills/bio-research-start/SKILL.md +79 -0
  80. package/content/customer-support/.mcp.json +40 -0
  81. package/content/customer-support/CONNECTORS.md +19 -0
  82. package/content/customer-support/LICENSE +202 -0
  83. package/content/customer-support/README.md +140 -0
  84. package/content/customer-support/skills/customer-support-customer-escalation/SKILL.md +248 -0
  85. package/content/customer-support/skills/customer-support-customer-research/SKILL.md +252 -0
  86. package/content/customer-support/skills/customer-support-draft-response/SKILL.md +418 -0
  87. package/content/customer-support/skills/customer-support-kb-article/SKILL.md +351 -0
  88. package/content/customer-support/skills/customer-support-ticket-triage/SKILL.md +275 -0
  89. package/content/data/.mcp.json +36 -0
  90. package/content/data/CONNECTORS.md +18 -0
  91. package/content/data/LICENSE +202 -0
  92. package/content/data/README.md +121 -0
  93. package/content/data/skills/data-analyze/SKILL.md +119 -0
  94. package/content/data/skills/data-build-dashboard/SKILL.md +924 -0
  95. package/content/data/skills/data-create-viz/SKILL.md +154 -0
  96. package/content/data/skills/data-data-context-extractor/SKILL.md +227 -0
  97. package/content/data/skills/data-data-context-extractor/references/domain-template.md +147 -0
  98. package/content/data/skills/data-data-context-extractor/references/example-output.md +198 -0
  99. package/content/data/skills/data-data-context-extractor/references/skill-template.md +148 -0
  100. package/content/data/skills/data-data-context-extractor/references/sql-dialects.md +121 -0
  101. package/content/data/skills/data-data-context-extractor/scripts/package_data_skill.py +126 -0
  102. package/content/data/skills/data-data-visualization/SKILL.md +305 -0
  103. package/content/data/skills/data-explore-data/SKILL.md +325 -0
  104. package/content/data/skills/data-sql-queries/SKILL.md +428 -0
  105. package/content/data/skills/data-statistical-analysis/SKILL.md +245 -0
  106. package/content/data/skills/data-validate-data/SKILL.md +383 -0
  107. package/content/data/skills/data-write-query/SKILL.md +122 -0
  108. package/content/design/.mcp.json +44 -0
  109. package/content/design/CONNECTORS.md +18 -0
  110. package/content/design/README.md +117 -0
  111. package/content/design/skills/design-accessibility-review/SKILL.md +128 -0
  112. package/content/design/skills/design-design-critique/SKILL.md +118 -0
  113. package/content/design/skills/design-design-handoff/SKILL.md +131 -0
  114. package/content/design/skills/design-design-system/SKILL.md +190 -0
  115. package/content/design/skills/design-research-synthesis/SKILL.md +92 -0
  116. package/content/design/skills/design-user-research/SKILL.md +41 -0
  117. package/content/design/skills/design-ux-copy/SKILL.md +107 -0
  118. package/content/engineering/.mcp.json +48 -0
  119. package/content/engineering/CONNECTORS.md +19 -0
  120. package/content/engineering/README.md +136 -0
  121. package/content/engineering/skills/engineering-architecture/SKILL.md +85 -0
  122. package/content/engineering/skills/engineering-code-review/SKILL.md +118 -0
  123. package/content/engineering/skills/engineering-debug/SKILL.md +95 -0
  124. package/content/engineering/skills/engineering-deploy-checklist/SKILL.md +78 -0
  125. package/content/engineering/skills/engineering-documentation/SKILL.md +49 -0
  126. package/content/engineering/skills/engineering-incident-response/SKILL.md +158 -0
  127. package/content/engineering/skills/engineering-standup/SKILL.md +75 -0
  128. package/content/engineering/skills/engineering-system-design/SKILL.md +42 -0
  129. package/content/engineering/skills/engineering-tech-debt/SKILL.md +32 -0
  130. package/content/engineering/skills/engineering-testing-strategy/SKILL.md +33 -0
  131. package/content/enterprise-search/.mcp.json +36 -0
  132. package/content/enterprise-search/CONNECTORS.md +21 -0
  133. package/content/enterprise-search/LICENSE +202 -0
  134. package/content/enterprise-search/README.md +157 -0
  135. package/content/enterprise-search/skills/enterprise-search-digest/SKILL.md +173 -0
  136. package/content/enterprise-search/skills/enterprise-search-knowledge-synthesis/SKILL.md +258 -0
  137. package/content/enterprise-search/skills/enterprise-search-search/SKILL.md +178 -0
  138. package/content/enterprise-search/skills/enterprise-search-search-strategy/SKILL.md +222 -0
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  140. package/content/finance/.mcp.json +32 -0
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  143. package/content/finance/README.md +92 -0
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  147. package/content/finance/skills/finance-journal-entry/SKILL.md +131 -0
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  150. package/content/finance/skills/finance-sox-testing/SKILL.md +218 -0
  151. package/content/finance/skills/finance-variance-analysis/SKILL.md +266 -0
  152. package/content/human-resources/.mcp.json +28 -0
  153. package/content/human-resources/CONNECTORS.md +19 -0
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  159. package/content/human-resources/skills/human-resources-org-planning/SKILL.md +28 -0
  160. package/content/human-resources/skills/human-resources-people-report/SKILL.md +99 -0
  161. package/content/human-resources/skills/human-resources-performance-review/SKILL.md +149 -0
  162. package/content/human-resources/skills/human-resources-policy-lookup/SKILL.md +94 -0
  163. package/content/human-resources/skills/human-resources-recruiting-pipeline/SKILL.md +31 -0
  164. package/content/legal/.mcp.json +36 -0
  165. package/content/legal/CONNECTORS.md +21 -0
  166. package/content/legal/LICENSE +202 -0
  167. package/content/legal/README.md +234 -0
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  169. package/content/legal/skills/legal-compliance-check/SKILL.md +274 -0
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  471. package/index.ts +84 -0
  472. package/package.json +30 -3
@@ -0,0 +1,77 @@
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+ ---
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+ name: status-report
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+ description: Generate a status report with KPIs, risks, and action items. Use when writing a weekly or monthly update for leadership, summarizing project health with green/yellow/red status, surfacing risks and decisions that need stakeholder attention, or turning a pile of project tracker activity into a readable narrative.
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+ argument-hint: "[weekly | monthly | quarterly] [project or team]"
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+ ---
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+
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+ # /status-report
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+
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+ > If you see unfamiliar placeholders or need to check which tools are connected, see [CONNECTORS.md](../../CONNECTORS.md).
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+
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+ Generate a polished status report for leadership or stakeholders. See the **risk-assessment** skill for risk matrix frameworks and severity definitions.
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+
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+ ## Usage
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+
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+ ```
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+ /status-report $ARGUMENTS
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+ ```
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+
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+ ## Output
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+
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+ ```markdown
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+ ## Status Report: [Project/Team] — [Period]
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+ **Author:** [Name] | **Date:** [Date]
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+
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+ ### Executive Summary
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+ [3-4 sentence overview — what's on track, what needs attention, key wins]
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+
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+ ### Overall Status: 🟢 On Track / 🟡 At Risk / 🔴 Off Track
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+
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+ ### Key Metrics
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+ | Metric | Target | Actual | Trend | Status |
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+ |--------|--------|--------|-------|--------|
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+ | [KPI] | [Target] | [Actual] | [up/down/flat] | 🟢/🟡/🔴 |
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+
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+ ### Accomplishments This Period
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+ - [Win 1]
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+ - [Win 2]
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+
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+ ### In Progress
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+ | Item | Owner | Status | ETA | Notes |
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+ |------|-------|--------|-----|-------|
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+ | [Item] | [Person] | [Status] | [Date] | [Context] |
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+
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+ ### Risks and Issues
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+ | Risk/Issue | Impact | Mitigation | Owner |
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+ |------------|--------|------------|-------|
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+ | [Risk] | [Impact] | [What we're doing] | [Who] |
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+
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+ ### Decisions Needed
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+ | Decision | Context | Deadline | Recommended Action |
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+ |----------|---------|----------|--------------------|
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+ | [Decision] | [Why it matters] | [When] | [What I recommend] |
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+
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+ ### Next Period Priorities
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+ 1. [Priority 1]
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+ 2. [Priority 2]
57
+ 3. [Priority 3]
58
+ ```
59
+
60
+ ## If Connectors Available
61
+
62
+ If **~~project tracker** is connected:
63
+ - Pull project status, completed items, and upcoming milestones automatically
64
+ - Identify at-risk items and overdue tasks
65
+
66
+ If **~~chat** is connected:
67
+ - Scan recent team discussions for decisions and blockers to include
68
+ - Offer to post the finished report to a channel
69
+
70
+ If **~~calendar** is connected:
71
+ - Reference key meetings and decisions from the reporting period
72
+
73
+ ## Tips
74
+
75
+ 1. **Lead with the headline** — Busy leaders read the first 3 lines. Make them count.
76
+ 2. **Be honest about risks** — Surfacing issues early builds trust. Surprises erode it.
77
+ 3. **Make decisions easy** — For each decision needed, provide context and a recommendation.
@@ -0,0 +1,104 @@
1
+ ---
2
+ name: vendor-review
3
+ description: Evaluate a vendor — cost analysis, risk assessment, and recommendation. Use when reviewing a new vendor proposal, deciding whether to renew or replace a contract, comparing two vendors side-by-side, or building a TCO breakdown and negotiation points before procurement sign-off.
4
+ argument-hint: "<vendor name or proposal>"
5
+ ---
6
+
7
+ # /vendor-review
8
+
9
+ > If you see unfamiliar placeholders or need to check which tools are connected, see [CONNECTORS.md](../../CONNECTORS.md).
10
+
11
+ Evaluate a vendor with structured analysis covering cost, risk, performance, and fit.
12
+
13
+ ## Usage
14
+
15
+ ```
16
+ /vendor-review $ARGUMENTS
17
+ ```
18
+
19
+ ## What I Need From You
20
+
21
+ - **Vendor name**: Who are you evaluating?
22
+ - **Context**: New vendor evaluation, renewal decision, or comparison?
23
+ - **Details**: Contract terms, pricing, proposal document, or current performance data
24
+
25
+ ## Evaluation Framework
26
+
27
+ ### Cost Analysis (Total Cost of Ownership)
28
+ - Total cost of ownership (not just license fees)
29
+ - Implementation and migration costs
30
+ - Training and onboarding costs
31
+ - Ongoing support and maintenance
32
+ - Exit costs (data migration, contract termination)
33
+
34
+ ### Risk Assessment
35
+ - Vendor financial stability
36
+ - Security and compliance posture
37
+ - Concentration risk (single vendor dependency)
38
+ - Contract lock-in and exit terms
39
+ - Business continuity and disaster recovery
40
+
41
+ ### Performance Metrics
42
+ - SLA compliance
43
+ - Support response times
44
+ - Uptime and reliability
45
+ - Feature delivery cadence
46
+ - Customer satisfaction
47
+
48
+ ### Comparison Matrix
49
+ When comparing vendors, produce a side-by-side matrix covering: pricing, features, integrations, security, support, contract terms, and references.
50
+
51
+ ## Output
52
+
53
+ ```markdown
54
+ ## Vendor Review: [Vendor Name]
55
+ **Date:** [Date] | **Type:** [New / Renewal / Comparison]
56
+
57
+ ### Summary
58
+ [2-3 sentence recommendation]
59
+
60
+ ### Cost Analysis
61
+ | Component | Annual Cost | Notes |
62
+ |-----------|-------------|-------|
63
+ | License/subscription | $[X] | [Per seat, flat, usage-based] |
64
+ | Implementation | $[X] | [One-time] |
65
+ | Support/maintenance | $[X] | [Included or add-on] |
66
+ | **Total Year 1** | **$[X]** | |
67
+ | **Total 3-Year** | **$[X]** | |
68
+
69
+ ### Risk Assessment
70
+ | Risk | Likelihood | Impact | Mitigation |
71
+ |------|-----------|--------|------------|
72
+ | [Risk] | High/Med/Low | High/Med/Low | [Mitigation] |
73
+
74
+ ### Strengths
75
+ - [Strength 1]
76
+ - [Strength 2]
77
+
78
+ ### Concerns
79
+ - [Concern 1]
80
+ - [Concern 2]
81
+
82
+ ### Recommendation
83
+ [Proceed / Negotiate / Pass] — [Reasoning]
84
+
85
+ ### Negotiation Points
86
+ - [Leverage point 1]
87
+ - [Leverage point 2]
88
+ ```
89
+
90
+ ## If Connectors Available
91
+
92
+ If **~~knowledge base** is connected:
93
+ - Search for existing vendor evaluations, contracts, and performance reviews
94
+ - Pull procurement policies and approval thresholds
95
+
96
+ If **~~procurement** is connected:
97
+ - Pull current contract terms, spend history, and renewal dates
98
+ - Compare pricing against existing vendor agreements
99
+
100
+ ## Tips
101
+
102
+ 1. **Upload the proposal** — I can extract pricing, terms, and SLAs from vendor documents.
103
+ 2. **Compare vendors** — "Compare Vendor A vs Vendor B" gets you a side-by-side analysis.
104
+ 3. **Include current spend** — For renewals, knowing what you pay now helps evaluate price changes.
@@ -0,0 +1,8 @@
1
+ {
2
+ "mcpServers": {
3
+ "pdf": {
4
+ "command": "npx",
5
+ "args": ["-y", "@modelcontextprotocol/server-pdf", "--stdio"]
6
+ }
7
+ }
8
+ }
@@ -0,0 +1,15 @@
1
+ # Connectors
2
+
3
+ ## Local MCP Server
4
+
5
+ This plugin uses a **local MCP server** instead of a remote connector.
6
+ The PDF server runs on your machine via `npx`.
7
+
8
+ | Category | Server | How it runs |
9
+ |----------|--------|-------------|
10
+ | PDF viewer & annotator | `@modelcontextprotocol/server-pdf` | Local stdio via `npx` (auto-installed) |
11
+
12
+ ### Requirements
13
+ - Node.js >= 18
14
+ - Internet access for remote PDFs (arXiv, bioRxiv, etc.)
15
+ - No API keys or authentication needed
@@ -0,0 +1,202 @@
1
+
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+ Apache License
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+ Version 2.0, January 2004
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+ http://www.apache.org/licenses/
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+ limitations under the License.
@@ -0,0 +1,57 @@
1
+ # PDF Viewer Plugin
2
+
3
+ View, annotate, and sign PDFs in a live interactive viewer. Mark up
4
+ contracts, fill forms with visual feedback, stamp approvals, and place
5
+ signatures — then download the annotated copy.
6
+
7
+ ## What It Does
8
+
9
+ - **Open PDFs** from local files or academic sources (arXiv, bioRxiv, etc.)
10
+ - **Annotate collaboratively** — Claude proposes highlights, notes, and
11
+ stamps section by section; you review each batch in the viewer
12
+ - **Fill forms** — guided field-by-field completion with live preview
13
+ - **Sign documents** — place signature/initials images on the page
14
+ - **Stamp approvals** — APPROVED, DRAFT, CONFIDENTIAL, or any custom label
15
+ - **Download** — export the annotated PDF from the viewer toolbar
16
+
17
+ ## Commands
18
+
19
+ | Command | What it does |
20
+ |---------|-------------|
21
+ | `/pdf-viewer:open` | Open a PDF in the interactive viewer |
22
+ | `/pdf-viewer:annotate` | Walk through the document, propose + apply markup, review together |
23
+ | `/pdf-viewer:fill-form` | Fill PDF form fields interactively |
24
+ | `/pdf-viewer:sign` | Place a signature or initials image on the page |
25
+
26
+ ## When to use this vs. just reading a PDF
27
+
28
+ This plugin is for **interactive, visual workflows** — when you want to
29
+ see the document, mark it up, and download an annotated copy.
30
+
31
+ If you just want Claude to **summarize or extract text** from a PDF,
32
+ don't use this plugin. Claude can read PDF files natively and that's
33
+ faster for pure ingestion.
34
+
35
+ ## How It Works
36
+
37
+ This plugin uses a **local MCP server** (`@modelcontextprotocol/server-pdf`)
38
+ that runs on your machine via `npx`. No API keys or remote services —
39
+ the PDF server starts automatically when the plugin loads.
40
+
41
+ ## Requirements
42
+
43
+ - Node.js >= 18
44
+ - Internet for remote PDFs (arXiv, etc.)
45
+
46
+ ## Supported PDF Sources
47
+
48
+ - Local files (file paths in your working directory)
49
+ - [arXiv](https://arxiv.org) — `/abs/` URLs auto-convert to PDF
50
+ - Any direct HTTPS PDF URL (bioRxiv, Zenodo, OSF, etc. — use the PDF
51
+ link, not the landing page)
52
+
53
+ ## Signature Disclaimer
54
+
55
+ `/pdf-viewer:sign` places a **visual** signature image on the page. It is not
56
+ a certified or cryptographic digital signature. For legally binding
57
+ e-signatures, use a dedicated signing service.
@@ -0,0 +1,51 @@
1
+ ---
2
+ description: Collaboratively annotate a PDF — propose markup, review together, iterate
3
+ argument-hint: "[path-or-url]"
4
+ ---
5
+
6
+ > If you need to check which tools are connected, see [CONNECTORS.md](../CONNECTORS.md).
7
+
8
+ # Annotate PDF
9
+
10
+ Walk through a document with the user, proposing and applying
11
+ annotations section by section. The user reviews each batch in the
12
+ live viewer before you continue.
13
+
14
+ ## Workflow (AI-driven default)
15
+
16
+ 1. **Open** — `display_pdf` (or use existing `viewUUID` if already open)
17
+ 2. **Understand** — `interact` → `get_text` on the first page range
18
+ (≤20 pages) to read content
19
+ 3. **Propose** — describe to the user what you plan to annotate:
20
+ > "I'll highlight the termination clause on page 2, add a note
21
+ > 'Review 30-day window' next to it, and stamp page 1 as DRAFT.
22
+ > Sound good?"
23
+ 4. **Apply** — on approval, `interact` with batched commands:
24
+ `add_annotations` + `get_screenshot` of the affected page
25
+ 5. **Review** — show the screenshot, ask for edits
26
+ 6. **Iterate** — move to the next section, repeat
27
+ 7. **Finish** — remind the user they can download the annotated PDF
28
+ from the viewer toolbar
29
+
30
+ ## Manual mode
31
+
32
+ If the user gives explicit instructions ("highlight paragraph 3",
33
+ "stamp CONFIDENTIAL on every page"), skip the proposal step and
34
+ execute directly. Still confirm with a screenshot.
35
+
36
+ ## Annotation types available
37
+
38
+ - **Text markup:** `highlight_text` (auto-finds text — preferred),
39
+ highlight, underline, strikethrough
40
+ - **Comments:** note (sticky), freetext (visible on page)
41
+ - **Shapes:** rectangle, circle, line
42
+ - **Stamps:** any label — APPROVED, DRAFT, CONFIDENTIAL, REVIEWED
43
+ - **Images:** signatures, initials, logos (see `/pdf-viewer:sign`)
44
+
45
+ ## Tips
46
+
47
+ - Prefer `highlight_text` over manual `rects` for text — it finds
48
+ coordinates automatically
49
+ - Batch related annotations in one `interact` call
50
+ - End each batch with `get_screenshot` so the user sees the result
51
+ - Keep proposals small (3–5 annotations per batch) so review is easy
@@ -0,0 +1,73 @@
1
+ ---
2
+ description: Fill PDF form fields interactively with live visual feedback
3
+ argument-hint: "[path-or-url]"
4
+ ---
5
+
6
+ > If you need to check which tools are connected, see [CONNECTORS.md](../CONNECTORS.md).
7
+
8
+ # Fill Form
9
+
10
+ Help the user complete a fillable PDF form in the live viewer. Unlike
11
+ programmatic form tools, this gives the user **direct visual feedback**
12
+ on every field as it's filled, with easy undo/edit in the viewer.
13
+
14
+ ## Why use this instead of programmatic form filling
15
+
16
+ - **Visual confirmation** — the user sees each value land in the right
17
+ box, not just a success message
18
+ - **Unnamed/unlabeled fields** — many real-world PDFs have fields with
19
+ machine names like `Text1`, `Field_7`, or no name at all. The label
20
+ ("Date of Birth", "SSN") is printed **next to** the field on the
21
+ rendered page, not in the field metadata. Use `get_screenshot` to
22
+ see what each field actually is, then fill by name.
23
+ - **Easy correction** — the user can edit or clear any field directly
24
+ in the viewer, or ask you to `fill_form` again with new values
25
+
26
+ ## Two approaches
27
+
28
+ ### User-driven (simple, well-labeled forms)
29
+
30
+ Call `display_pdf` with `elicit_form_inputs: true`. The server detects
31
+ form fields and prompts the user to enter values **before** the viewer
32
+ opens. The filled PDF is then displayed.
33
+
34
+ ### AI-assisted (complex forms, unnamed fields, or when you have context)
35
+
36
+ 1. `display_pdf` (without elicit) — inspect returned `formFields`
37
+ (name, type, page, bounding box)
38
+ 2. If field names are cryptic (`Text1`, `Field_7`), use `interact` →
39
+ `get_screenshot` of each page with fields. Look at the visual
40
+ labels next to each bounding box to understand what each field is.
41
+ 3. For each field, either:
42
+ - Infer the value from conversation context (name, date, email)
43
+ - Ask the user, describing the field by its **visual** label
44
+ ("the 'Date of Birth' box on page 1")
45
+ 4. `interact` → `fill_form` with `fields: [{name, value}, ...]`
46
+ 5. `interact` → `get_screenshot` of each filled page
47
+ 6. Show the user, ask them to confirm or edit
48
+
49
+ ## Example
50
+
51
+ > **User:** Help me fill out this W-9
52
+ >
53
+ > *You:* `display_pdf` → formFields: `f1_1`, `f1_2`, `f1_3`, `c1_1`, ...
54
+ > (cryptic names)
55
+ >
56
+ > *You:* `interact` → `get_screenshot` page 1 → see `f1_1` is next to
57
+ > "Name", `f1_2` is "Business name", `c1_1` is the "Individual" checkbox
58
+ >
59
+ > *You:* "I can see Name, Business name, Address, TIN, and tax
60
+ > classification checkboxes. I'll fill Name and Date from what I
61
+ > know — what's your TIN and business address?"
62
+ >
63
+ > *After answers:* `interact` → `fill_form` + `get_screenshot`
64
+ >
65
+ > *You:* "Here's the filled form [screenshot]. The signature line is
66
+ > still blank — want to add your signature with `/pdf-viewer:sign`?"
67
+
68
+ ## Notes
69
+
70
+ - Signature fields are usually separate — fill text first, then hand
71
+ off to `/pdf-viewer:sign` for the image
72
+ - Checkbox/radio values are `true`/`false` or the option string
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+ - The user can always drag & edit fields directly in the viewer
@@ -0,0 +1,34 @@
1
+ ---
2
+ description: Open a PDF in the interactive viewer
3
+ argument-hint: "[path-or-url]"
4
+ ---
5
+
6
+ > If you need to check which tools are connected, see [CONNECTORS.md](../CONNECTORS.md).
7
+
8
+ # Open PDF
9
+
10
+ Display a PDF document in the live viewer. Use this when the user wants
11
+ to **see** a document — not just extract its text.
12
+
13
+ ## Instructions
14
+
15
+ 1. If the user provides a URL or file path, call `display_pdf` with it
16
+ 2. If no path given, call `list_pdfs` first to show available documents
17
+ 3. After displaying, offer next steps based on the document type:
18
+ - **Contract / report** → "Want me to highlight key sections or add
19
+ review notes?"
20
+ - **Form** → "This has fillable fields — shall I help you fill it?"
21
+ - **Academic paper** → "Shall I walk through and annotate the key
22
+ findings?"
23
+
24
+ ## Supported Sources
25
+
26
+ - Local files (paths or drag-and-drop into your working directory)
27
+ - arXiv (`arxiv.org/abs/...` auto-converts to PDF URL)
28
+ - Any direct HTTPS PDF URL (use the PDF link, not a landing page)
29
+
30
+ ## When NOT to use this
31
+
32
+ If the user just wants a summary or text extraction, **do not** open
33
+ the viewer — use Claude's native Read tool on the PDF path instead.
34
+ The viewer is for interactive, visual workflows.
@@ -0,0 +1,54 @@
1
+ ---
2
+ description: Place a signature or initials image on a PDF
3
+ argument-hint: "[path-or-url] [signature-image-path]"
4
+ ---
5
+
6
+ > If you need to check which tools are connected, see [CONNECTORS.md](../CONNECTORS.md).
7
+
8
+ # Sign PDF
9
+
10
+ Add a visual signature or initials to a document using an image
11
+ annotation.
12
+
13
+ > **Disclaimer:** This places your signature **image** on the page. It
14
+ > is **not** a certified or cryptographic digital signature. For
15
+ > legally binding e-signatures, use a dedicated signing service.
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+
17
+ ## Workflow
18
+
19
+ 1. **Get the signature image** — ask the user for a local file path
20
+ (PNG/JPG) to their signature or initials. If they don't have one,
21
+ suggest they create one and save it to a known path.
22
+
23
+ 2. **Open the PDF** — `display_pdf` (or reuse existing `viewUUID`).
24
+ Check the returned `formFields` for signature-type fields — they
25
+ include page and bounding-box coordinates.
26
+
27
+ 3. **Locate the target** — if there's a signature field, use its
28
+ coordinates. Otherwise ask: "Which page, and where on the page?
29
+ (e.g., bottom-right of page 3)"
30
+
31
+ 4. **Place it** — `interact` → `add_annotations`:
32
+ ```json
33
+ {"action": "add_annotations", "annotations": [
34
+ {"id": "sig1", "type": "image", "page": 3,
35
+ "imageUrl": "/path/to/signature.png",
36
+ "x": 400, "y": 700, "width": 150}
37
+ ]}
38
+ ```
39
+ Width/height auto-detected from the image if omitted.
40
+
41
+ 5. **Verify** — follow with `get_screenshot` of that page. Show the
42
+ user. Adjust position if needed via `update_annotations`.
43
+
44
+ 6. **Initials on every page** — batch one `image` annotation per page
45
+ in a single `add_annotations` call.
46
+
47
+ ## Tips
48
+
49
+ - `imageUrl` accepts local file paths or HTTPS URLs (no data: URIs)
50
+ - Users can also drag & drop the signature image directly onto the
51
+ viewer
52
+ - Coordinate origin is top-left; a typical bottom-right signature on
53
+ US Letter is around `x: 400, y: 700`
54
+ - Pair with `/pdf-viewer:fill-form` for complete form workflows