1,938 tagged bioinformatics, measured the same way as everything else here.
Browse within: computational-biology 406Cheminformatics 399awesome-list 334openclaw 235cancer-genomics 208data-analysis 199biology 196ai4science 187awesome 182ai-scientist 177chemoinformatics 163claudecode 163academic-writing 152data-science 149
YuliaNuzhnenko/bioinformatics-agent-skills
Skill Claude CodeCodex
Parses AlphaFold2 PDB files, computes per-residue pLDDT confidence scores, and evaluates Solvent Accessible Surface Area (SASA) of active site pockets.
Skill Claude CodeCodex
Activate when an agent must parse high-throughput screening plate-reader data, reconcile plate maps, detect row/column/edge artifacts, normalize inhibition or activation assays, calculate Z-prime or robust Z-prime, compute robust z-scores or B-scores, assess replicate concordance, control false discoveries, call…
Pavel-Kravchenko/Bioinformatics
Skill Claude CodeCodex
ColPali-style Vision RAG: embed rendered PDF pages, retrieve via ColBERT MaxSim, feed top-k pages to Qwen2-VL, no OCR. Use for PDF/document QA over figures and tables, multimodal retrieval, or Recall@k/MRR eval.
Skill Claude CodeCodex
Comprehensive Seurat v5 (R) guide for single-cell RNA-seq and multimodal analysis. Covers installation, standard workflows (Normalize/SCTransform), clustering, integration (CCA/RPCA/Harmony), differential expression (FindMarkers/FindAllMarkers), visualization (DimPlot/FeaturePlot/VlnPlot/DoHeatmap), spatial…
Skill Claude CodeCodex
Personal assistant for one person's own medical data — genome, laboratory history, prescriptions, wearables. It reads them against each other locally and states what the data cannot support. No data is baked into the skill: everyone supplies their own. Use it when you need to check a physician's prescription as a…
Hongda-Zhao/bio-gene-to-reference-tree
Skill Claude CodeCodex
Orchestrate this repository's end-to-end auditable protein or nucleotide gene-tree workflow. Use when a request spans several stages or the active stage is unclear; select one task adapter, then follow the canonical Skill and its review gates.
Skill Claude CodeCodex
Run differential expression analysis on bulk RNA-seq count data with DESeq2 (R). Covers DESeqDataSet construction from a count matrix, tximport (Salmon/Kallisto), featureCounts, or SummarizedExperiment; pre-filtering; design formulas (simple, batch, paired, interaction, multi-factor, LRT); result extraction by…
Skill Claude CodeCodex
Domain expertise for cell-cell communication (CCC) analysis. Intent-to-tool routing, workflow patterns, code templates, and pitfall warnings for LIANA+, CellPhoneDB, CellChat, NicheNet, COMMOT, Squidpy, MEBOCOST, DIALOGUE, and 10+ additional tools across scRNA-seq and spatial transcriptomics data.
Skill Claude CodeCodex
Skill for working with ESM2 protein language models from Meta FAIR. Use this skill whenever the user wants to generate protein embeddings or representations, score variant effects or predict mutation fitness, run contact prediction, or use ESMFold for structure prediction. Also trigger when the user mentions ESM2…
Lord1Egypt/scientific-agent-toolkit
Skill Claude Code
Untargeted and targeted metabolomics data analysis using pyMZML, mzTab-M processing, and metabolite identification. Use for LC-MS/GC-MS feature detection, metabolite annotation, differential metabolite analysis, pathway mapping, and metabolic flux visualization. Covers XCMS-compatible workflows in Python.
Skill Claude CodeCodex
Search academic literature (Semantic Scholar) for synbio/microbiology papers, returning a ranked, citable list to feed into paper-extractor.
zamushwani/biomedical-ai-skills
Skill Claude CodeCodex
Systematic review and meta-analysis for clinical and preclinical evidence. Covers protocol registration, search strategy, screening, PRISMA 2020 flow diagrams, risk of bias, pooling with fixed and random effects models, small-study effects, sensitivity diagnostics, network meta-analysis, and GRADE/CINeMA certainty…
Skill Claude CodeCodex
Performs verified local nucleotide-sequence computation with Computase. Use when an agent needs sequence composition or GC bounds, a reverse complement, translation, candidate ORFs, or IUPAC motif sites through Computase MCP tools or the isolated Skill runner.
helena-bioinformatics/noodle-mcp
Skill Codex
Find, inspect, compare, and traverse public biomedical research literature. Use for PubMed or scholarly paper search, publication details, PMID/DOI/PMCID lookup, related papers, citation paths, semantic literature neighborhoods, corpus coverage, or questions asking what research exists about a gene, variant…
At most 3 mods per repository are shown here, and a mod shipped inside a plugin is left to that plugin's page — the rest are on their repository pages: