[Upstream sync] K-Dense-AI/scientific-agent-skills (github) — 109 added, 11 modified #63

Merged

promptadmin merged 120 commits from upstream-sync/scientific-agent-skills-20261026-5f2bc0-nujm into main

2026-10-26 16:41:30 +00:00

promptadmin commented

2026-10-26 16:37:54 +00:00

Owner

Upstream sync from `K-Dense-AI/scientific-agent-skills` (github)

Source: https://github.com/K-Dense-AI/scientific-agent-skills
Forge: github
Compare: 1e5eeffb...5f2bc034

Scan summary

Category	Files
Prompt / Skill files	0
Catalogue / Reference files	120

Prompt files are stored under upstream/{owner}-{repo}/
Catalogue files are stored under upstream/{owner}-{repo}/catalogue/

Decision required

Option	Action
Accept	Merge this PR — changes ingested into PromptNotes
Reject	Close this PR — local version preserved unchanged
Modify	Edit files in this branch before merging

Backup rights: If the upstream repository is later deleted or made private,
the last accepted version in PromptNotes is retained under backup rights.

Files added (109)

docs/skill-guides/13c-metabolic-flux.md
docs/skill-guides/README.md
docs/skill-guides/adaptyv.md
docs/skill-guides/aeon.md
docs/skill-guides/alphagenome.md
docs/skill-guides/analytical-method-validation.md
docs/skill-guides/anndata.md
docs/skill-guides/arbor.md
docs/skill-guides/arboreto.md
docs/skill-guides/astropy.md
docs/skill-guides/autoskill.md
docs/skill-guides/benchling-integration.md
docs/skill-guides/bgpt-paper-search.md
docs/skill-guides/bids.md
docs/skill-guides/biopython.md
docs/skill-guides/bioservices.md
docs/skill-guides/bulk-rnaseq.md
docs/skill-guides/cantera.md
docs/skill-guides/cellprofiler.md
docs/skill-guides/cellxgene-census.md
docs/skill-guides/cirq.md
docs/skill-guides/citation-management.md
docs/skill-guides/clinical-decision-support.md
docs/skill-guides/clinical-reports.md
docs/skill-guides/cobrapy.md
docs/skill-guides/consciousness-council.md
docs/skill-guides/dask.md
docs/skill-guides/database-lookup.md
docs/skill-guides/datalad.md
docs/skill-guides/datamol.md
docs/skill-guides/deepchem.md
docs/skill-guides/deepspot-m.md
docs/skill-guides/deeptools.md
docs/skill-guides/depmap.md
docs/skill-guides/dhdna-profiler.md
docs/skill-guides/diffdock.md
docs/skill-guides/dnanexus-integration.md
docs/skill-guides/esm.md
docs/skill-guides/etetoolkit.md
docs/skill-guides/exa-search.md
… and 69 more

Files modified (11)

.github/workflows/pr-skill-scan.yml
.github/workflows/skill-tests.yml
AGENTS.md
CONTRIBUTING.md
README.md
SECURITY.md
docs/examples.md
docs/open-source-sponsors.md
docs/security-report.json
docs/security-report.md
docs/security-triage.md

Files removed upstream (1)

Accepting this PR will NOT delete them from PromptNotes.

CLAUDE.md

Auto-generated by PromptNotes upstream tracker v2 · 2026-10-26 16:37 UTC

## Upstream sync from `K-Dense-AI/scientific-agent-skills` (github) **Source:** https://github.com/K-Dense-AI/scientific-agent-skills **Forge:** github **Compare:** [1e5eeffb...5f2bc034](https://github.com/K-Dense-AI/scientific-agent-skills/compare/1e5eeffb...5f2bc034) --- ## Scan summary | Category | Files | |----------|-------| | Prompt / Skill files | 0 | | Catalogue / Reference files | 120 | > Prompt files are stored under `upstream/{owner}-{repo}/` > Catalogue files are stored under `upstream/{owner}-{repo}/catalogue/` --- ## Decision required | Option | Action | |--------|--------| | **Accept** | Merge this PR — changes ingested into PromptNotes | | **Reject** | Close this PR — local version preserved unchanged | | **Modify** | Edit files in this branch before merging | > **Backup rights:** If the upstream repository is later deleted or made private, > the last accepted version in PromptNotes is retained under backup rights. --- ## Files added (109) - `docs/skill-guides/13c-metabolic-flux.md` - `docs/skill-guides/README.md` - `docs/skill-guides/adaptyv.md` - `docs/skill-guides/aeon.md` - `docs/skill-guides/alphagenome.md` - `docs/skill-guides/analytical-method-validation.md` - `docs/skill-guides/anndata.md` - `docs/skill-guides/arbor.md` - `docs/skill-guides/arboreto.md` - `docs/skill-guides/astropy.md` - `docs/skill-guides/autoskill.md` - `docs/skill-guides/benchling-integration.md` - `docs/skill-guides/bgpt-paper-search.md` - `docs/skill-guides/bids.md` - `docs/skill-guides/biopython.md` - `docs/skill-guides/bioservices.md` - `docs/skill-guides/bulk-rnaseq.md` - `docs/skill-guides/cantera.md` - `docs/skill-guides/cellprofiler.md` - `docs/skill-guides/cellxgene-census.md` - `docs/skill-guides/cirq.md` - `docs/skill-guides/citation-management.md` - `docs/skill-guides/clinical-decision-support.md` - `docs/skill-guides/clinical-reports.md` - `docs/skill-guides/cobrapy.md` - `docs/skill-guides/consciousness-council.md` - `docs/skill-guides/dask.md` - `docs/skill-guides/database-lookup.md` - `docs/skill-guides/datalad.md` - `docs/skill-guides/datamol.md` - `docs/skill-guides/deepchem.md` - `docs/skill-guides/deepspot-m.md` - `docs/skill-guides/deeptools.md` - `docs/skill-guides/depmap.md` - `docs/skill-guides/dhdna-profiler.md` - `docs/skill-guides/diffdock.md` - `docs/skill-guides/dnanexus-integration.md` - `docs/skill-guides/esm.md` - `docs/skill-guides/etetoolkit.md` - `docs/skill-guides/exa-search.md` - … and 69 more ## Files modified (11) - `.github/workflows/pr-skill-scan.yml` - `.github/workflows/skill-tests.yml` - `AGENTS.md` - `CONTRIBUTING.md` - `README.md` - `SECURITY.md` - `docs/examples.md` - `docs/open-source-sponsors.md` - `docs/security-report.json` - `docs/security-report.md` - `docs/security-triage.md` ## Files removed upstream (1) > Accepting this PR will NOT delete them from PromptNotes. - `CLAUDE.md` --- *Auto-generated by PromptNotes upstream tracker v2 · 2026-10-26 16:37 UTC*

promptadmin added 120 commits 2026-10-26 16:37:56 +00:00