How do I install the Bioskills skill?

Run npx skillmds@latest add tomevault-io/bioskills in your terminal (requires Node.js), paste this page's agent-chat prompt into Claude, Cursor, or any MCP-connected agent, or download the SKILL.md file and copy it into your agent's skills directory.

Is Bioskills safe to use?

This skill has not completed SkillMD's automated safety review yet. SkillMD never runs a skill's scripts for you; review the SKILL.md before installing.

Which AI agents work with Bioskills?

This skill is tagged as working with Claude Code, Claude.ai, OpenAI Codex. SKILL.md is an open format, so most agents that read a skills directory can load it too.

Is Bioskills free to use?

Yes. Installing skills from SkillMD is free, and the skill stays under its author's original license.

Who published Bioskills?

tomevault-io (@tomevault-io) published this skill. Their other Agent Skills are listed on their SkillMD profile.

Bioskills by tomevault-io — Agent Skill

Name: Bioskills
Author: tomevault-io

Bioskills

Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed. Use when this capability is needed.

tomevault-io 0bacc0d 2 files · 3.8 KB Updated Sep 17, 2026

File contents

bioSkills Installer

Meta-skill that installs the full bioSkills collection (425 skills across 62 categories) for bioinformatics analysis.

Installation

Run the bundled install script to download and install all bioSkills:

bash scripts/install-bioskills.sh

Or install only specific categories:

bash scripts/install-bioskills.sh --categories "single-cell,variant-calling,differential-expression"

What Gets Installed

425 skills across 62 categories covering:

Sequence & Alignment (40): sequence-io, sequence-manipulation, alignment, alignment-files, database-access
Read Processing (11): read-qc, read-alignment
RNA-seq & Expression (14): differential-expression, rna-quantification, expression-matrix
Single-Cell & Spatial (25): single-cell, spatial-transcriptomics
Variant Analysis (21): variant-calling, copy-number, phasing-imputation
Epigenomics (25): chip-seq, atac-seq, methylation-analysis, hi-c-analysis
Metagenomics & Microbiome (13): metagenomics, microbiome
Genomics & Assembly (29): genome-assembly, genome-annotation, genome-intervals, genome-engineering, primer-design
Regulatory & Causal (13): gene-regulatory-networks, causal-genomics, rna-structure
Temporal & Ecological (11): temporal-genomics, ecological-genomics
Immunology & Clinical (25): immunoinformatics, clinical-databases, tcr-bcr-analysis, epidemiological-genomics
Specialized Omics (36): proteomics, metabolomics, alternative-splicing, chemoinformatics, liquid-biopsy
RNA Biology (20): small-rna-seq, epitranscriptomics, clip-seq, ribo-seq
Phylogenetics & Evolution (16): phylogenetics, population-genetics, comparative-genomics
Structural & Systems (11): structural-biology, systems-biology
Screens & Cytometry (22): crispr-screens, flow-cytometry, imaging-mass-cytometry
Pathway & Integration (14): pathway-analysis, multi-omics-integration, restriction-analysis
Infrastructure (39): data-visualization, machine-learning, workflow-management, reporting, experimental-design, long-read-sequencing
Workflows (40): end-to-end pipelines (FASTQ to results)

After Installation

Once installed, skills are automatically triggered based on the task at hand. Example requests:

"I have RNA-seq counts from treated vs control samples - find the differentially expressed genes"
"Call variants from this whole genome sequencing BAM file"
"Cluster my single-cell RNA-seq data and find marker genes"
"Predict the structure of this protein sequence"
"Run a metagenomics classification on these shotgun reads"

Source

GitHub: https://github.com/GPTomics/bioSkills

Converted and distributed by TomeVault — claim your Tome and manage your conversions.

---name: bioskillsdescription: Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed. Use when this capability is needed.---# bioSkills InstallerMeta-skill that installs the full bioSkills collection (425 skills across 62 categories) for bioinformatics analysis.## InstallationRun the bundled install script to download and install all bioSkills:```bashbash scripts/install-bioskills.sh```Or install only specific categories:```bashbash scripts/install-bioskills.sh --categories "single-cell,variant-calling,differential-expression"```## What Gets Installed425 skills across 62 categories covering:- **Sequence & Alignment** (40): sequence-io, sequence-manipulation, alignment, alignment-files, database-access- **Read Processing** (11): read-qc, read-alignment- **RNA-seq & Expression** (14): differential-expression, rna-quantification, expression-matrix- **Single-Cell & Spatial** (25): single-cell, spatial-transcriptomics- **Variant Analysis** (21): variant-calling, copy-number, phasing-imputation- **Epigenomics** (25): chip-seq, atac-seq, methylation-analysis, hi-c-analysis- **Metagenomics & Microbiome** (13): metagenomics, microbiome- **Genomics & Assembly** (29): genome-assembly, genome-annotation, genome-intervals, genome-engineering, primer-design- **Regulatory & Causal** (13): gene-regulatory-networks, causal-genomics, rna-structure- **Temporal & Ecological** (11): temporal-genomics, ecological-genomics- **Immunology & Clinical** (25): immunoinformatics, clinical-databases, tcr-bcr-analysis, epidemiological-genomics- **Specialized Omics** (36): proteomics, metabolomics, alternative-splicing, chemoinformatics, liquid-biopsy- **RNA Biology** (20): small-rna-seq, epitranscriptomics, clip-seq, ribo-seq- **Phylogenetics & Evolution** (16): phylogenetics, population-genetics, comparative-genomics- **Structural & Systems** (11): structural-biology, systems-biology- **Screens & Cytometry** (22): crispr-screens, flow-cytometry, imaging-mass-cytometry- **Pathway & Integration** (14): pathway-analysis, multi-omics-integration, restriction-analysis- **Infrastructure** (39): data-visualization, machine-learning, workflow-management, reporting, experimental-design, long-read-sequencing- **Workflows** (40): end-to-end pipelines (FASTQ to results)## After InstallationOnce installed, skills are automatically triggered based on the task at hand. Example requests:- "I have RNA-seq counts from treated vs control samples - find the differentially expressed genes"- "Call variants from this whole genome sequencing BAM file"- "Cluster my single-cell RNA-seq data and find marker genes"- "Predict the structure of this protein sequence"- "Run a metagenomics classification on these shotgun reads"## SourceGitHub: https://github.com/GPTomics/bioSkills---> Converted and distributed by [TomeVault](https://tomevault.io/claim/gptomics) — claim your Tome and manage your conversions.

Frequently asked questions