sci-bioinformatics-genomics

plugin-place

A curated Claude Code plugin marketplace. Currently hosts K-Dense AI's scientific tooling split into focused, individually-installable plugins so you only load what you need.

Quick start

# Add the marketplace (one time)
claude plugin marketplace add galeep/plugin-place

# List what's available
claude plugin search @plugin-place

# Install whichever pieces you want
claude plugin install sci-bioinformatics-genomics@plugin-place
claude plugin install sci-machine-learning@plugin-place
claude plugin install kdense-document-skills@plugin-place

What's in here

19 plugins, 135 skills, all sourced from K-Dense AI and licensed MIT. Two upstream repos vendor in, pinned to release tags:

• K-Dense-AI/scientific-agent-skills @ v2.38.0 — 135 scientific skills, split here into 17 domain plugins plus the general-purpose kdense-document-skills plugin
• K-Dense-AI/claude-scientific-writer @ v2.13.0 — full writer plugin with a /scientific-writer-init command

The plugins

Plugin	Skills	What it covers
sci-bioinformatics-genomics	20	Sequence analysis, scRNA-seq, gene regulatory networks, variants, phylogenetics, biomedical DBs
sci-cheminformatics-drug-discovery	9	Cheminformatics, molecular ML, docking, medicinal chemistry
sci-proteomics-mass-spec	3	LC-MS/MS, spectral matching, glycoengineering
sci-clinical-research	4	CDS, clinical/case/trial reports, treatment plans, ISO 13485
sci-healthcare-ai	2	PyHealth, NeuroKit2 biosignal processing
sci-medical-imaging	4	DICOM, WSI, computational pathology, NCI Imaging Data Commons
sci-machine-learning	16	scikit-learn, Lightning, transformers, RL, time series, GNNs, Bayesian, SHAP, GPU/compute helpers
sci-materials-chemistry	2	pymatgen, COBRApy
sci-physics-astronomy	6	astropy, sympy, qutip, qiskit, cirq, pennylane
sci-engineering-simulation	4	SimPy, pymoo, CFD, molecular dynamics
sci-data-analysis-viz	14	Stats, EDA, networks, survival, plotting, big-data dataframes, MATLAB, US fiscal data
sci-geospatial	2	GIS, remote sensing, earth-observation ML
sci-lab-automation	11	Benchling, DNAnexus, LatchBio, OMERO, Opentrons, protocols.io, PyLabRobot, flow cytometry, Neuropixels
sci-scientific-communication	22	Lit review, peer review, writing, citations, posters, slides, schematics, infographics, academic web search
sci-multi-omics	3	DepMap, PrimeKG, scvi-tools
sci-protein-engineering	2	ESM, Adaptyv Bio Foundry
sci-research-methodology	7	Hypothesis generation, grant writing, brainstorming, critical thinking, scenario analysis
kdense-document-skills	4	General-purpose .docx, .pdf, .pptx, .xlsx tools (useful with any plugin)
claude-scientific-writer	23	K-Dense's full writer plugin including the /scientific-writer-init command

Overlap warning: writer vs. sci-* plugins

The claude-scientific-writer plugin and the sci-* plugins share most of their skills (K-Dense maintains the same skill code in both upstreams). Specifically:

• 23 of the writer's 23 skills also appear in one of the sci-* plugins (mostly sci-scientific-communication, plus sci-clinical-research and sci-research-methodology)
• The writer's unique contribution is the /scientific-writer-init slash command (which the bare skills lack)

Pick one approach:

• Install the writer: get all the writing/clinical skills plus the init command, in a single plugin
• Install individual sci-* plugins: get exactly the domain slices you want, granular enable/disable

Installing both will give you duplicate skill names, which is unsupported and will confuse Claude Code's skill router.

How this is built

plugins.yaml is the source of truth. Everything else is generated:

git submodule update --init --recursive
bash scripts/build.sh

This regenerates plugins/* and .claude-plugin/marketplace.json from the YAML and the pinned upstream submodules. The build is idempotent — edits inside plugins/* will be overwritten.

The built plugin kind copies a chosen subset of skills from an upstream submodule. The vendored plugin kind copies an entire upstream plugin intact (skills, commands, agents, hooks) and generates a plugin.json from its upstream marketplace metadata. A local kind is reserved for plugins authored directly in this repo.

To add a new plugin, edit plugins.yaml and rerun scripts/build.sh.

Staying in sync with upstream