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azaanaliraza
azaanalirazaCOMMUNITY
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bioinformatics

Indexes and fetches 400+ bioinformatics skills covering genomics, transcriptomics, and variant calling pipelines.

Updated Apr 18, 2026
Search Tags:#bioinformatics#genomics#single-cell#pharmacogenomics#rna-seq#metagenomics#variant calling
One-click install
npx skills add https://github.com/azaanaliraza/operarius --skill bioinformatics-azaanaliraza
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: bioinformatics
Source: https://github.com/azaanaliraza/operarius/tree/main/src-tauri/bin/hermes/optional-skills/research/bioinformatics
Command: npx skills add https://github.com/azaanaliraza/operarius --skill bioinformatics-azaanaliraza

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve? Bioinformatics work spans hundreds of specialized tools and pipelines, and no single skill can bundle them all. This gateway indexes over 400 domain skills from the bioSkills and ClawBio repositories and fetches the exact reference guide or runnable pipeline you need on demand. ## Core Features & Use Cases - On-Demand Skill Fetching: Shallow-clones the bioSkills (385 reference guides) or ClawBio (33 executable pipelines) repositories and reads the specific SKILL.md or README for your task. - Broad Domain Coverage: Covers genomics, RNA-seq, single-cell analysis, variant calling, pharmacogenomics, metagenomics, structural biology, proteomics, CRISPR screens, and more. - Use Case: You need to annotate a VCF file with clinical significance data. The gateway points you to the ClawBio vcf-annotator pipeline (VEP + ClinVar + gnomAD) or the bioSkills variant-annotation guide, which you clone and follow directly. ## Quick Start Ask the assistant to fetch the appropriate bioinformatics skill for your task, for example by requesting the GATK variant calling guide from bioSkills.

Frequently Asked Questions about bioinformatics

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I access bioinformatics skills for variant calling or RNA-seq?▼

Identify the domain in the skill index, then shallow-clone the relevant repository with git clone --depth 1. Read the specific SKILL.md in bioSkills for reference guides or the README in ClawBio for runnable pipelines.

What is the difference between bioSkills and ClawBio?▼

bioSkills provides 385 reference guides with code patterns, parameters, and decision trees that are not directly executable. ClawBio provides 33 runnable Python pipelines, many with --demo flags, that export report.md, commands.sh, and environment.yml.

What tools do I need installed to run these bioinformatics pipelines?▼

You need a bioinformatics workstation with Python packages like biopython, pysam, and scanpy, R/Bioconductor packages like DESeq2, and CLI tools like samtools, bcftools, and bedtools. Conda via the bioconda channel is recommended for reproducibility.

Can I run ClawBio pipelines directly after cloning?▼

Yes, many ClawBio skills are executable and include --demo flags. Run pip install -r requirements.txt in the cloned repository first, and verify that required external tools and reference data are available.

What are the limitations of this bioinformatics skill gateway?▼

The fetched skills are not in Hermes SKILL.md format and must be treated as expert reference material. Genomic data files can be very large, so disk space is a concern when downloading reference genomes or SRA datasets.

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