cleanup
01Skill Claude CodeCodex
Clean up project housekeeping tasks (add "run" to execute fixes).
2 2mo ago A 16 tokens
2Stars on the repository
52Mods indexed here, across every type
2mo agoLast push, which is what freshness is scored on
noneNo LICENSE: all rights reserved, so bodies are not copied
feature
02Skill Claude CodeCodex
Manage the BioAPEX current-feature workflow from scoping through review and completion.
2 2mo ago A 17 tokens
Skill Claude CodeCodex
List all React component files (.tsx, .ts, .jsx, .js) in the components folder.
2 2mo ago A 6 tokens
Skill Claude CodeCodex
Triage whether ambient RNA contamination is a plausible explanation for suspicious single-cell expression patterns.
2 2mo ago A 23 tokens
Skill Claude CodeCodex
Turn an analysis request into a Slurm-ready execution plan with commands, resource assumptions, and job structure.
2 2mo ago A 27 tokens
Skill Claude CodeCodex
Recommend a batch-integration strategy and explain the tradeoffs for preserving biology versus removing technical effects.
2 2mo ago A 25 tokens
Skill Claude CodeCodex
Scale a buffer recipe to a target volume and compute component masses/volumes.
2 2mo ago A 21 tokens
Skill Claude CodeCodex
Save a fetched summary or document to the knowledge base for later retrieval (e.g. after PubMed/UniProt lookup).
2 2mo ago A 30 tokens
Skill Claude CodeCodex
Interpret scRNA clusters using marker genes and suggest cell type or state.
2 2mo ago A 19 tokens
count_lines
10Skill Claude CodeCodex
Count the number of lines in a given file.
2 2mo ago A 12 tokens
Skill Claude CodeCodex
Critically evaluate a perturbation hypothesis — challenge assumptions, propose negative controls, and flag confounders.
2 2mo ago A 27 tokens
Skill Claude CodeCodex
Explain where project data and outputs live (e.g. GPFS, data/, predictions/) from knowledge base.
2 2mo ago A 26 tokens
Skill Claude CodeCodex
Interpret a differential expression result with replicate-aware context, likely confounders, and the next analysis decision.
2 2mo ago A 27 tokens
Skill Claude CodeCodex
Calculate C1V1=C2V2 dilutions, serial dilutions with plate-based replicates, and budget-conscious volume planning that accounts for micropipette systematic error.
2 2mo ago A 41 tokens
Skill Claude CodeCodex
Advise on doublet detection and removal for scRNA (scrublet, scDblFinder, best practices).
2 2mo ago A 30 tokens
Skill Claude CodeCodex
Build an evidence matrix linking a gene list to a phenotype, pathway, or biological question using literature and local knowledge.
2 2mo ago A 28 tokens
Skill Claude CodeCodex
Get a short summary of gene function from UniProt/NCBI Gene and related pathways.
2 2mo ago A 22 tokens
Skill Claude CodeCodex
Build a compact annotation table for a gene list using canonical identifiers, species, function, and caveats.
2 2mo ago A 26 tokens
Skill Claude CodeCodex
Run or interpret gene set enrichment (Enrichr/g:Profiler) and summarize results.
2 2mo ago A 23 tokens
Skill Claude CodeCodex
Normalize gene symbols, aliases, and species context before downstream lookup or analysis.
2 2mo ago A 20 tokens
Skill Claude CodeCodex
Generate candidate perturbation hypotheses (targets, mechanism, expected signature, experiment plan) for a given biological context and phenotype goal.
2 2mo ago A 34 tokens
get_weather
22Skill Claude CodeCodex
Get the current weather for a specified city using wttr.in.
2 2mo ago A 15 tokens
Skill Claude CodeCodex
Precheck biological and interpretation risks before selecting perturbation targets or guide designs.
2 2mo ago A 21 tokens
Skill Claude CodeCodex
Summarize the current literature consensus, disagreements, and evidence strength for a biological question.
2 2mo ago A 24 tokens