Save MultiAssayExperiments to h5mu files supported by muon and mudata.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-mudata --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/single-cell/mudata .claude/skills/bioconductor-mudata && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "bioconductor-mudata" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudata into .claude/skills/bioconductor-mudata/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-mudata", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudataType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-mudata --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/single-cell/mudata .agents/skills/bioconductor-mudata && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "bioconductor-mudata" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudata into .agents/skills/bioconductor-mudata/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-mudata", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-mudata --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/single-cell/mudata .cursor/skills/bioconductor-mudata && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "bioconductor-mudata" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudata into .cursor/skills/bioconductor-mudata/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-mudata", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/bioMate-AI/biomate-bioconductor-kb.git --path skills/single-cell/mudata--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-mudata --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/single-cell/mudata .gemini/skills/bioconductor-mudata && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "bioconductor-mudata" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudata into .gemini/skills/bioconductor-mudata/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-mudata", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-mudataInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/single-cell/mudata .github/skills/bioconductor-mudata && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "bioconductor-mudata" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudata into .github/skills/bioconductor-mudata/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-mudata", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-mudata --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/single-cell/mudata .opencode/skills/bioconductor-mudata && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "bioconductor-mudata" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/single-cell/mudata into .opencode/skills/bioconductor-mudata/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-mudata", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
bioconductor-mudataSave MultiAssayExperiments to h5mu files supported by muon and mudata.
Bioconductor Mudata is an agent skill from bioMate-AI/biomate-bioconductor-kb. Save MultiAssayExperiments to h5mu files supported by muon and mudata. Muon is a Python framework for multimodal omics data analysis. It uses an HDF5-based format for data storage.
Its SKILL.md is about 1k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It sits in Research & Science, covering Bioinformatics and Data analysis. It works with Python. The repository describes itself as: BioMate-KB Bioconductor Skills — 200 packages (top 100 by downloads + 100 rising stars) as vignette-grounded Claude/agent skills, with per-package workflow recipes.
Read from SKILL.md and the folder at commit c9bd4d8. It shows what the files ask for, not the result of running them.
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
No scripts in the folder and no shell commands in SKILL.md (its code samples are r).
From the folder's file list and the shell code blocks in SKILL.md.
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Bioconductor Mudata loads about 1k tokens when it runs. Until then it costs about 50 tokens; SKILL.md has 429 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 429 words (~1,045 tokens).
“Save MultiAssayExperiments to h5mu files supported by muon and mudata. Muon is a Python framework for multimodal omics data analysis. It uses an HDF5-based format for data storage.”
Just SKILL.md in skills/single-cell/mudata of bioMate-AI/biomate-bioconductor-kb.
Open the folder on GitHubat commit c9bd4d8
Bioconductor Mudata next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Bioconductor Mudata this skillbioMate-AI/biomate-bioconductor-kb | 804 | — | ~1k | Automated safety check: Pass | Custom licence | |
| Bio Population Genetics Linkage DisequilibriumGPTomics/bioSkills | 1.2k | 1 repos | ~4.7k | Automated safety check: Pass | MIT | |
| Dnanexus Integrationaipoch/medical-research-skills | 1.9k | — | ~3.5k | Automated safety check: Pass | MIT | |
| Bio Causal Genomics Genetic CorrelationGPTomics/bioSkills | 1.2k | 2 repos | ~9.1k | Automated safety check: Pass | MIT | |
| Bio Causal Genomics Heritability PartitioningGPTomics/bioSkills | 1.2k | 2 repos | ~8.9k | Automated safety check: Pass | MIT | |
| Bio Causal Genomics Transcriptome Wide AssociationGPTomics/bioSkills | 1.2k | 2 repos | ~11k | Automated safety check: Pass | MIT |
GPTomics/bioSkills
Computes linkage disequilibrium (r2, D', composite Rogers-Huff r2), prunes correlated variants, clumps GWAS summary statistics to lead SNPs, and defines haplotype blocks with PLINK 1.9/2.0 and…
aipoch/medical-research-skills
DNAnexus cloud genomics platform. An agent skill from aipoch/medical-research-skills.
GPTomics/bioSkills
Estimates bivariate genetic correlation (rg) between traits from GWAS summary statistics or individual-level genotypes using cross-trait LDSC, HDL, LAVA, rho-HESS, GREML-bivariate, Popcorn, and HDL-L.
GPTomics/bioSkills
Estimates SNP heritability and partitions it across functional annotations, cell types, and loci from GWAS summary statistics or individual-level genotypes.
GPTomics/bioSkills
Performs gene-level association from GWAS summary statistics via genetically predicted tissue expression using FUSION, PrediXcan, S-PrediXcan, S-MultiXcan, UTMOST, MOSTWAS, kTWAS, EpiXcan, TIGAR-V2…
davila7/claude-code-templates
Python interface to OpenMS for mass spectrometry data analysis.
bioMate-AI/biomate-bioconductor-kb
This package provides a client for the Bioconductor AnnotationHub web resource.
bioMate-AI/biomate-bioconductor-kb
ASURAT is a software for single-cell data analysis. An agent skill from bioMate-AI/biomate-bioconductor-kb.
bioMate-AI/biomate-bioconductor-kb
We propose an Asymmetric Within-Sample Transformation (AWST) to regularize RNA-seq read counts and reduce the effect of noise on the classification of samples.
bioMate-AI/biomate-bioconductor-kb
The Bandle package enables the analysis and visualisation of differential localisation experiments using mass-spectrometry data.
bioMate-AI/biomate-bioconductor-kb
Implements a variety of methods for batch correction of single-cell (RNA sequencing) data.
bioMate-AI/biomate-bioconductor-kb
BEER implements a Bayesian model for analyzing phage-immunoprecipitation sequencing (PhIP-seq) data.
Works with
Categories
Save MultiAssayExperiments to h5mu files supported by muon and mudata. Bioconductor Mudata is an agent skill from bioMate-AI/biomate-bioconductor-kb. Save MultiAssayExperiments to h5mu files supported by muon and mudata.
Bioconductor Mudata fits situations like: tasks that involve Bioinformatics; tasks that involve Data analysis.
Run `npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a claude-code`. Or copy the skill folder (skills/single-cell/mudata in bioMate-AI/biomate-bioconductor-kb) into .claude/skills/bioconductor-mudata in your project. Claude Code loads it when a task matches its description.
Run `npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a codex`. Or copy the skill folder (skills/single-cell/mudata in bioMate-AI/biomate-bioconductor-kb) into .agents/skills/bioconductor-mudata in your project. Codex loads it when a task matches its description.
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-mudata -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/bioconductor-mudata, .gemini/skills/bioconductor-mudata, .github/skills/bioconductor-mudata and .opencode/skills/bioconductor-mudata in your project.
SKILL.md names no scripts, command-line tools or credentials: Bioconductor Mudata is instructions for the agent only. Our summary lists: Python 3.
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
Bioconductor Mudata has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.
About 1k tokens (SKILL.md is roughly 4.2k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
Skills that share tags, products or a category with Bioconductor Mudata: Bio Population Genetics Linkage Disequilibrium (GPTomics/bioSkills, 1.2k stars), Dnanexus Integration (aipoch/medical-research-skills, 1.9k stars), Bio Causal Genomics Genetic Correlation (GPTomics/bioSkills, 1.2k stars) and Bio Causal Genomics Heritability Partitioning (GPTomics/bioSkills, 1.2k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
bioMate-AI (a GitHub organization) maintains it in bioMate-AI/biomate-bioconductor-kb, which has 804 GitHub stars. The repository holds 112 skills in this directory. The repository was last updated on June 20, 2026.
Source: bioMate-AI/biomate-bioconductor-kb on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.
