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.
- package/LICENSE +212 -0
- package/README.md +124 -2
- package/content/bio-research/.mcp.json +48 -0
- package/content/bio-research/CONNECTORS.md +23 -0
- package/content/bio-research/LICENSE +202 -0
- package/content/bio-research/README.md +83 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/LICENSE.txt +201 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/SKILL.md +280 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/asm_schema_overview.md +226 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/field_classification_guide.md +503 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/flattening_guide.md +254 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/references/supported_instruments.md +151 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/requirements.txt +26 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/convert_to_asm.py +543 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/export_parser.py +481 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/flatten_asm.py +254 -0
- package/content/bio-research/skills/bio-research-instrument-data-to-allotrope/scripts/validate_asm.py +1102 -0
- package/content/bio-research/skills/bio-research-nextflow-development/LICENSE.txt +201 -0
- package/content/bio-research/skills/bio-research-nextflow-development/SKILL.md +290 -0
- package/content/bio-research/skills/bio-research-nextflow-development/references/geo-sra-acquisition.md +416 -0
- package/content/bio-research/skills/bio-research-nextflow-development/references/installation.md +96 -0
- package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/atacseq.md +138 -0
- package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/rnaseq.md +118 -0
- package/content/bio-research/skills/bio-research-nextflow-development/references/pipelines/sarek.md +145 -0
- package/content/bio-research/skills/bio-research-nextflow-development/references/troubleshooting.md +137 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/check_environment.py +452 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/genomes.yaml +148 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/atacseq.yaml +187 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/rnaseq.yaml +147 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/config/pipelines/sarek.yaml +233 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/detect_data_type.py +300 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/generate_samplesheet.py +455 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/manage_genomes.py +521 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/sra_geo_fetch.py +732 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/__init__.py +69 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/file_discovery.py +189 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/ncbi_utils.py +808 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/sample_inference.py +290 -0
- package/content/bio-research/skills/bio-research-nextflow-development/scripts/utils/validators.py +256 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/LICENSE.txt +201 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/SKILL.md +269 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/01-intuition-pumps.md +264 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/02-risk-assessment.md +323 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/03-optimization-function.md +481 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/04-parameter-strategy.md +396 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/05-decision-tree.md +85 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/06-adversity-planning.md +123 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/07-problem-inversion.md +152 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/08-integration-synthesis.md +173 -0
- package/content/bio-research/skills/bio-research-scientific-problem-selection/references/09-meta-framework.md +504 -0
- package/content/bio-research/skills/bio-research-scvi-tools/LICENSE.txt +201 -0
- package/content/bio-research/skills/bio-research-scvi-tools/SKILL.md +155 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/atac_peakvi.md +398 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/batch_correction_sysvi.md +417 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/citeseq_totalvi.md +420 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/data_preparation.md +286 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/environment_setup.md +254 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/label_transfer.md +373 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/multiome_multivi.md +384 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/rna_velocity_velovi.md +410 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/scarches_mapping.md +401 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/scrna_integration.md +429 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/spatial_deconvolution.md +438 -0
- package/content/bio-research/skills/bio-research-scvi-tools/references/troubleshooting.md +420 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/cluster_embed.py +212 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/differential_expression.py +220 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/integrate_datasets.py +237 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/model_utils.py +634 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/prepare_data.py +169 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/train_model.py +370 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/transfer_labels.py +224 -0
- package/content/bio-research/skills/bio-research-scvi-tools/scripts/validate_adata.py +397 -0
- package/content/bio-research/skills/bio-research-single-cell-rna-qc/LICENSE.txt +201 -0
- package/content/bio-research/skills/bio-research-single-cell-rna-qc/SKILL.md +175 -0
- package/content/bio-research/skills/bio-research-single-cell-rna-qc/references/scverse_qc_guidelines.md +186 -0
- package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_analysis.py +232 -0
- package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_core.py +233 -0
- package/content/bio-research/skills/bio-research-single-cell-rna-qc/scripts/qc_plotting.py +235 -0
- package/content/bio-research/skills/bio-research-start/SKILL.md +79 -0
- package/content/customer-support/.mcp.json +40 -0
- package/content/customer-support/CONNECTORS.md +19 -0
- package/content/customer-support/LICENSE +202 -0
- package/content/customer-support/README.md +140 -0
- package/content/customer-support/skills/customer-support-customer-escalation/SKILL.md +248 -0
- package/content/customer-support/skills/customer-support-customer-research/SKILL.md +252 -0
- package/content/customer-support/skills/customer-support-draft-response/SKILL.md +418 -0
- package/content/customer-support/skills/customer-support-kb-article/SKILL.md +351 -0
- package/content/customer-support/skills/customer-support-ticket-triage/SKILL.md +275 -0
- package/content/data/.mcp.json +36 -0
- package/content/data/CONNECTORS.md +18 -0
- package/content/data/LICENSE +202 -0
- package/content/data/README.md +121 -0
- package/content/data/skills/data-analyze/SKILL.md +119 -0
- package/content/data/skills/data-build-dashboard/SKILL.md +924 -0
- package/content/data/skills/data-create-viz/SKILL.md +154 -0
- package/content/data/skills/data-data-context-extractor/SKILL.md +227 -0
- package/content/data/skills/data-data-context-extractor/references/domain-template.md +147 -0
- package/content/data/skills/data-data-context-extractor/references/example-output.md +198 -0
- package/content/data/skills/data-data-context-extractor/references/skill-template.md +148 -0
- package/content/data/skills/data-data-context-extractor/references/sql-dialects.md +121 -0
- package/content/data/skills/data-data-context-extractor/scripts/package_data_skill.py +126 -0
- package/content/data/skills/data-data-visualization/SKILL.md +305 -0
- package/content/data/skills/data-explore-data/SKILL.md +325 -0
- package/content/data/skills/data-sql-queries/SKILL.md +428 -0
- package/content/data/skills/data-statistical-analysis/SKILL.md +245 -0
- package/content/data/skills/data-validate-data/SKILL.md +383 -0
- package/content/data/skills/data-write-query/SKILL.md +122 -0
- package/content/design/.mcp.json +44 -0
- package/content/design/CONNECTORS.md +18 -0
- package/content/design/README.md +117 -0
- package/content/design/skills/design-accessibility-review/SKILL.md +128 -0
- package/content/design/skills/design-design-critique/SKILL.md +118 -0
- package/content/design/skills/design-design-handoff/SKILL.md +131 -0
- package/content/design/skills/design-design-system/SKILL.md +190 -0
- package/content/design/skills/design-research-synthesis/SKILL.md +92 -0
- package/content/design/skills/design-user-research/SKILL.md +41 -0
- package/content/design/skills/design-ux-copy/SKILL.md +107 -0
- package/content/engineering/.mcp.json +48 -0
- package/content/engineering/CONNECTORS.md +19 -0
- package/content/engineering/README.md +136 -0
- package/content/engineering/skills/engineering-architecture/SKILL.md +85 -0
- package/content/engineering/skills/engineering-code-review/SKILL.md +118 -0
- package/content/engineering/skills/engineering-debug/SKILL.md +95 -0
- package/content/engineering/skills/engineering-deploy-checklist/SKILL.md +78 -0
- package/content/engineering/skills/engineering-documentation/SKILL.md +49 -0
- package/content/engineering/skills/engineering-incident-response/SKILL.md +158 -0
- package/content/engineering/skills/engineering-standup/SKILL.md +75 -0
- package/content/engineering/skills/engineering-system-design/SKILL.md +42 -0
- package/content/engineering/skills/engineering-tech-debt/SKILL.md +32 -0
- package/content/engineering/skills/engineering-testing-strategy/SKILL.md +33 -0
- package/content/enterprise-search/.mcp.json +36 -0
- package/content/enterprise-search/CONNECTORS.md +21 -0
- package/content/enterprise-search/LICENSE +202 -0
- package/content/enterprise-search/README.md +157 -0
- package/content/enterprise-search/skills/enterprise-search-digest/SKILL.md +173 -0
- package/content/enterprise-search/skills/enterprise-search-knowledge-synthesis/SKILL.md +258 -0
- package/content/enterprise-search/skills/enterprise-search-search/SKILL.md +178 -0
- package/content/enterprise-search/skills/enterprise-search-search-strategy/SKILL.md +222 -0
- package/content/enterprise-search/skills/enterprise-search-source-management/SKILL.md +173 -0
- package/content/finance/.mcp.json +32 -0
- package/content/finance/CONNECTORS.md +20 -0
- package/content/finance/LICENSE +202 -0
- package/content/finance/README.md +92 -0
- package/content/finance/skills/finance-audit-support/SKILL.md +374 -0
- package/content/finance/skills/finance-close-management/SKILL.md +221 -0
- package/content/finance/skills/finance-financial-statements/SKILL.md +335 -0
- package/content/finance/skills/finance-journal-entry/SKILL.md +131 -0
- package/content/finance/skills/finance-journal-entry-prep/SKILL.md +186 -0
- package/content/finance/skills/finance-reconciliation/SKILL.md +175 -0
- package/content/finance/skills/finance-sox-testing/SKILL.md +218 -0
- package/content/finance/skills/finance-variance-analysis/SKILL.md +266 -0
- package/content/human-resources/.mcp.json +28 -0
- package/content/human-resources/CONNECTORS.md +19 -0
- package/content/human-resources/README.md +138 -0
- package/content/human-resources/skills/human-resources-comp-analysis/SKILL.md +92 -0
- package/content/human-resources/skills/human-resources-draft-offer/SKILL.md +82 -0
- package/content/human-resources/skills/human-resources-interview-prep/SKILL.md +37 -0
- package/content/human-resources/skills/human-resources-onboarding/SKILL.md +104 -0
- package/content/human-resources/skills/human-resources-org-planning/SKILL.md +28 -0
- package/content/human-resources/skills/human-resources-people-report/SKILL.md +99 -0
- package/content/human-resources/skills/human-resources-performance-review/SKILL.md +149 -0
- package/content/human-resources/skills/human-resources-policy-lookup/SKILL.md +94 -0
- package/content/human-resources/skills/human-resources-recruiting-pipeline/SKILL.md +31 -0
- package/content/legal/.mcp.json +36 -0
- package/content/legal/CONNECTORS.md +21 -0
- package/content/legal/LICENSE +202 -0
- package/content/legal/README.md +234 -0
- package/content/legal/skills/legal-brief/SKILL.md +208 -0
- package/content/legal/skills/legal-compliance-check/SKILL.md +274 -0
- package/content/legal/skills/legal-legal-response/SKILL.md +457 -0
- package/content/legal/skills/legal-legal-risk-assessment/SKILL.md +265 -0
- package/content/legal/skills/legal-meeting-briefing/SKILL.md +220 -0
- package/content/legal/skills/legal-review-contract/SKILL.md +358 -0
- package/content/legal/skills/legal-signature-request/SKILL.md +104 -0
- package/content/legal/skills/legal-triage-nda/SKILL.md +262 -0
- package/content/legal/skills/legal-vendor-check/SKILL.md +159 -0
- package/content/manifest.json +86 -0
- package/content/marketing/.mcp.json +60 -0
- package/content/marketing/CONNECTORS.md +20 -0
- package/content/marketing/LICENSE +202 -0
- package/content/marketing/README.md +90 -0
- package/content/marketing/skills/marketing-brand-review/SKILL.md +276 -0
- package/content/marketing/skills/marketing-campaign-plan/SKILL.md +308 -0
- package/content/marketing/skills/marketing-competitive-brief/SKILL.md +331 -0
- package/content/marketing/skills/marketing-content-creation/SKILL.md +157 -0
- package/content/marketing/skills/marketing-draft-content/SKILL.md +117 -0
- package/content/marketing/skills/marketing-email-sequence/SKILL.md +220 -0
- package/content/marketing/skills/marketing-performance-report/SKILL.md +392 -0
- package/content/marketing/skills/marketing-seo-audit/SKILL.md +190 -0
- package/content/operations/.mcp.json +32 -0
- package/content/operations/CONNECTORS.md +20 -0
- package/content/operations/README.md +135 -0
- package/content/operations/skills/operations-capacity-plan/SKILL.md +113 -0
- package/content/operations/skills/operations-change-request/SKILL.md +121 -0
- package/content/operations/skills/operations-compliance-tracking/SKILL.md +44 -0
- package/content/operations/skills/operations-process-doc/SKILL.md +82 -0
- package/content/operations/skills/operations-process-optimization/SKILL.md +39 -0
- package/content/operations/skills/operations-risk-assessment/SKILL.md +40 -0
- package/content/operations/skills/operations-runbook/SKILL.md +87 -0
- package/content/operations/skills/operations-status-report/SKILL.md +77 -0
- package/content/operations/skills/operations-vendor-review/SKILL.md +104 -0
- package/content/pdf-viewer/.mcp.json +8 -0
- package/content/pdf-viewer/CONNECTORS.md +15 -0
- package/content/pdf-viewer/LICENSE +202 -0
- package/content/pdf-viewer/README.md +57 -0
- package/content/pdf-viewer/commands/annotate.md +51 -0
- package/content/pdf-viewer/commands/fill-form.md +73 -0
- package/content/pdf-viewer/commands/open.md +34 -0
- package/content/pdf-viewer/commands/sign.md +54 -0
- package/content/pdf-viewer/skills/pdf-viewer-view-pdf/SKILL.md +147 -0
- package/content/product-management/.mcp.json +72 -0
- package/content/product-management/CONNECTORS.md +22 -0
- package/content/product-management/LICENSE +202 -0
- package/content/product-management/README.md +118 -0
- package/content/product-management/commands/brainstorm.md +120 -0
- package/content/product-management/skills/product-management-competitive-brief/SKILL.md +302 -0
- package/content/product-management/skills/product-management-metrics-review/SKILL.md +388 -0
- package/content/product-management/skills/product-management-product-brainstorming/SKILL.md +273 -0
- package/content/product-management/skills/product-management-roadmap-update/SKILL.md +266 -0
- package/content/product-management/skills/product-management-sprint-planning/SKILL.md +94 -0
- package/content/product-management/skills/product-management-stakeholder-update/SKILL.md +352 -0
- package/content/product-management/skills/product-management-synthesize-research/SKILL.md +312 -0
- package/content/product-management/skills/product-management-write-spec/SKILL.md +250 -0
- package/content/productivity/.mcp.json +44 -0
- package/content/productivity/CONNECTORS.md +18 -0
- package/content/productivity/LICENSE +202 -0
- package/content/productivity/README.md +97 -0
- package/content/productivity/skills/dashboard.html +3111 -0
- package/content/productivity/skills/productivity-memory-management/SKILL.md +323 -0
- package/content/productivity/skills/productivity-start/SKILL.md +158 -0
- package/content/productivity/skills/productivity-task-management/SKILL.md +91 -0
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- package/content/sales/.mcp.json +100 -0
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- package/content/small-business/.mcp.json +148 -0
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- package/content/small-business/skills/small-business-ad-manager/reference/data_sources.md +100 -0
- package/content/small-business/skills/small-business-ad-manager/reference/diagnostics.md +89 -0
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- package/content/small-business/skills/small-business-ap-processor/reference/matching_and_exceptions.md +80 -0
- package/content/small-business/skills/small-business-ap-processor/reference/payment_run.md +77 -0
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Syntax-file, code seperations,code vault integeted with css definition.
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Pre-recordec, pre-tested, elements to capture elements into Packeted-User-Relations to capture - [
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pre-requisites, statements, recorded-cams
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, cams-data
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, data, input()
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]
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package/README.md
CHANGED
|
@@ -1,3 +1,125 @@
|
|
|
1
|
-
#
|
|
1
|
+
# opencode-knowledge-work
|
|
2
2
|
|
|
3
|
-
|
|
3
|
+
Anthropic's [knowledge-work-plugins](https://github.com/anthropics/knowledge-work-plugins)
|
|
4
|
+
collection, adapted to run as an OpenCode plugin.
|
|
5
|
+
|
|
6
|
+
Upstream ships 16 role-based plugins (sales, legal, finance, data, …) as Claude
|
|
7
|
+
Cowork / Claude Code plugin bundles. The content is plain markdown and JSON, so
|
|
8
|
+
porting it is mostly a packaging problem rather than a rewrite.
|
|
9
|
+
|
|
10
|
+
- **16 plugins, 179 skills, 5 slash commands**
|
|
11
|
+
- Skill IDs are namespaced per plugin, so nothing collides
|
|
12
|
+
- Plugins are opt-in, because advertising all 179 skill descriptions costs
|
|
13
|
+
roughly 16k tokens on every model step
|
|
14
|
+
|
|
15
|
+
## Install
|
|
16
|
+
|
|
17
|
+
```sh
|
|
18
|
+
npm install opencode-knowledge-work
|
|
19
|
+
```
|
|
20
|
+
|
|
21
|
+
Or from a checkout:
|
|
22
|
+
|
|
23
|
+
```sh
|
|
24
|
+
opencode plugin add andrelbuzzo/opencode-knowledge-work
|
|
25
|
+
```
|
|
26
|
+
|
|
27
|
+
## Configure
|
|
28
|
+
|
|
29
|
+
Add it to `opencode.json`. Plugins are opt-in, so list the ones you want:
|
|
30
|
+
|
|
31
|
+
```jsonc
|
|
32
|
+
{
|
|
33
|
+
"$schema": "https://opencode.ai/config.json",
|
|
34
|
+
"plugins": [
|
|
35
|
+
{
|
|
36
|
+
"package": "opencode-knowledge-work",
|
|
37
|
+
"options": {
|
|
38
|
+
"plugins": ["engineering", "sales"]
|
|
39
|
+
}
|
|
40
|
+
}
|
|
41
|
+
]
|
|
42
|
+
}
|
|
43
|
+
```
|
|
44
|
+
|
|
45
|
+
### Options
|
|
46
|
+
|
|
47
|
+
| Value | Behaviour |
|
|
48
|
+
| --- | --- |
|
|
49
|
+
| omitted | defaults to `["engineering"]` |
|
|
50
|
+
| `["sales", "legal"]` | load exactly those |
|
|
51
|
+
| `["*"]` | load all 16 (expensive, see above) |
|
|
52
|
+
| `["*", "-small-business"]` | everything except one |
|
|
53
|
+
|
|
54
|
+
Unknown names log a warning with the available list rather than failing.
|
|
55
|
+
|
|
56
|
+
### Skill IDs
|
|
57
|
+
|
|
58
|
+
Skill IDs are `<plugin>-<skill>`, so `sales`'s `call-prep` is `sales-call-prep`.
|
|
59
|
+
Upstream has 15 skill names that appear in more than one plugin; without the
|
|
60
|
+
prefix the later plugin silently wins. Reference them with `@sales-call-prep`.
|
|
61
|
+
|
|
62
|
+
## Connectors
|
|
63
|
+
|
|
64
|
+
The plugins assume MCP connectors for the tools in each role. They are **not**
|
|
65
|
+
registered automatically — most need OAuth and you should only enable the ones
|
|
66
|
+
you use. Print the commands for a plugin:
|
|
67
|
+
|
|
68
|
+
```sh
|
|
69
|
+
bun run mcp sales # from a checkout; prints opencode mcp add ... lines
|
|
70
|
+
```
|
|
71
|
+
|
|
72
|
+
Then run `/mcps` in OpenCode to sign in.
|
|
73
|
+
|
|
74
|
+
## Commands
|
|
75
|
+
|
|
76
|
+
Five plugins ship slash commands. OpenCode discovers commands as files, so copy
|
|
77
|
+
the ones you want into your config directory to get the `/<plugin>/<name>` form:
|
|
78
|
+
|
|
79
|
+
```sh
|
|
80
|
+
cp -r node_modules/opencode-knowledge-work/content/pdf-viewer/commands/pdf \
|
|
81
|
+
~/.config/opencode/commands/pdf
|
|
82
|
+
```
|
|
83
|
+
|
|
84
|
+
Then `/pdf/...` is available. Source for these lives in `content/<plugin>/commands`.
|
|
85
|
+
|
|
86
|
+
## What changed from upstream
|
|
87
|
+
|
|
88
|
+
1. **Skill directories are namespaced.** `skills/call-prep` becomes
|
|
89
|
+
`skills/sales-call-prep`, applied by `scripts/sync-upstream.ts`.
|
|
90
|
+
2. **`partner-built` is excluded.** It is mostly app-development skills
|
|
91
|
+
(`ios`, `web`, `android` repeated four times each), not knowledge work.
|
|
92
|
+
3. **`cowork-plugin-management` is excluded.** It teaches authoring Claude Cowork
|
|
93
|
+
plugins, which is meaningless outside Cowork.
|
|
94
|
+
|
|
95
|
+
The skill and command bodies are otherwise unmodified. The upstream
|
|
96
|
+
`../../CONNECTORS.md` relative links already resolve correctly once the content
|
|
97
|
+
sits at `content/<plugin>/`, so no path rewriting is needed.
|
|
98
|
+
|
|
99
|
+
## Development
|
|
100
|
+
|
|
101
|
+
```sh
|
|
102
|
+
bun install
|
|
103
|
+
bun run sync # re-vendor from upstream into content/
|
|
104
|
+
bun run check sales # load the plugin against a stub context, assert counts
|
|
105
|
+
bun run typecheck
|
|
106
|
+
```
|
|
107
|
+
|
|
108
|
+
`content/manifest.json` records the upstream commit that was vendored, so
|
|
109
|
+
`sync` is a one-command refresh. Pinning to one snapshot means upstream's
|
|
110
|
+
frequent commits cannot break you silently.
|
|
111
|
+
|
|
112
|
+
## Caveats
|
|
113
|
+
|
|
114
|
+
- Skills describe workflows that call connector tools. Without the matching MCP
|
|
115
|
+
server connected, a skill will describe steps it cannot execute.
|
|
116
|
+
- Content is vendored, not live. Run `bun run sync` to pick up upstream changes,
|
|
117
|
+
then review the diff.
|
|
118
|
+
- Several skills mention Claude by name in their prose. That is cosmetic, but
|
|
119
|
+
the collection was written for a different agent and has not been rewritten
|
|
120
|
+
for OpenCode's conventions.
|
|
121
|
+
|
|
122
|
+
## License
|
|
123
|
+
|
|
124
|
+
Apache-2.0. Plugin content is Copyright Anthropic, PBC, redistributed under the
|
|
125
|
+
same license. See [LICENSE](./LICENSE) and [NOTICE](./NOTICE).
|
|
@@ -0,0 +1,48 @@
|
|
|
1
|
+
{
|
|
2
|
+
"mcpServers": {
|
|
3
|
+
"pubmed": {
|
|
4
|
+
"type": "http",
|
|
5
|
+
"url": "https://pubmed.mcp.claude.com/mcp"
|
|
6
|
+
},
|
|
7
|
+
"biorender": {
|
|
8
|
+
"type": "http",
|
|
9
|
+
"url": "https://mcp.services.biorender.com/mcp"
|
|
10
|
+
},
|
|
11
|
+
"biorxiv": {
|
|
12
|
+
"type": "http",
|
|
13
|
+
"url": "https://hcls.mcp.claude.com/biorxiv/mcp"
|
|
14
|
+
},
|
|
15
|
+
"consensus": {
|
|
16
|
+
"type": "http",
|
|
17
|
+
"url": "https://mcp.consensus.app/mcp"
|
|
18
|
+
},
|
|
19
|
+
"c-trials": {
|
|
20
|
+
"type": "http",
|
|
21
|
+
"url": "https://hcls.mcp.claude.com/clinical_trials/mcp"
|
|
22
|
+
},
|
|
23
|
+
"chembl": {
|
|
24
|
+
"type": "http",
|
|
25
|
+
"url": "https://hcls.mcp.claude.com/chembl/mcp"
|
|
26
|
+
},
|
|
27
|
+
"synapse": {
|
|
28
|
+
"type": "http",
|
|
29
|
+
"url": "https://mcp.synapse.org/mcp"
|
|
30
|
+
},
|
|
31
|
+
"wiley": {
|
|
32
|
+
"type": "http",
|
|
33
|
+
"url": "https://connector.scholargateway.ai/mcp"
|
|
34
|
+
},
|
|
35
|
+
"owkin": {
|
|
36
|
+
"type": "http",
|
|
37
|
+
"url": "https://mcp.k.owkin.com/mcp"
|
|
38
|
+
},
|
|
39
|
+
"ot": {
|
|
40
|
+
"type": "http",
|
|
41
|
+
"url": "https://mcp.platform.opentargets.org/mcp"
|
|
42
|
+
},
|
|
43
|
+
"benchling": {
|
|
44
|
+
"type": "http",
|
|
45
|
+
"url": ""
|
|
46
|
+
}
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# Connectors
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## How tool references work
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Plugin files use `~~category` as a placeholder for whatever tool the user connects in that category. For example, `~~literature` might mean PubMed, bioRxiv, or any other literature source with an MCP server.
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Plugins are **tool-agnostic** — they describe workflows in terms of categories (literature, clinical trials, chemical database, etc.) rather than specific products. The `.mcp.json` pre-configures specific MCP servers, but any MCP server in that category works.
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## Connectors for this plugin
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| Category | Placeholder | Included servers | Other options |
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|----------|-------------|-----------------|---------------|
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| Literature | `~~literature` | PubMed, bioRxiv, Consensus | Google Scholar, Semantic Scholar |
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| Scientific illustration | `~~scientific illustration` | BioRender | — |
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| Clinical trials | `~~clinical trials` | ClinicalTrials.gov | EU Clinical Trials Register |
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| Data repository | `~~data repository` | Synapse | Zenodo, Dryad, Figshare |
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| Journal access | `~~journal access` | Wiley Scholar Gateway | Elsevier, Springer Nature |
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| AI research | `~~AI research` | Owkin | — |
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| Lab platform | `~~lab platform` | Benchling\* | — |
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\* Placeholder — MCP URL not yet configured
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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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TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
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1. Definitions.
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"License" shall mean the terms and conditions for use, reproduction,
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and distribution as defined by Sections 1 through 9 of this document.
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"Licensor" shall mean the copyright owner or entity authorized by
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"Legal Entity" shall mean the union of the acting entity and all
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"control" means (i) the power, direct or indirect, to cause the
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"You" (or "Your") shall mean an individual or Legal Entity
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source, and configuration files.
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END OF TERMS AND CONDITIONS
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APPENDIX: How to apply the Apache License to your work.
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To apply the Apache License to your work, attach the following
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the brackets!) The text should be enclosed in the appropriate
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comment syntax for the file format. We also recommend that a
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file or class name and description of purpose be included on the
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identification within third-party archives.
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Copyright [yyyy] [name of copyright owner]
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Licensed under the Apache License, Version 2.0 (the "License");
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you may not use this file except in compliance with the License.
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You may obtain a copy of the License at
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http://www.apache.org/licenses/LICENSE-2.0
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Unless required by applicable law or agreed to in writing, software
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distributed under the License is distributed on an "AS IS" BASIS,
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WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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See the License for the specific language governing permissions and
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limitations under the License.
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