80,000+ Skills to Supercharge Claude
The open directory for GitHub-integrated capabilities, tools, and prompts for your AI workflows.
bio-pathway-kegg-pathways
by GPTomics
KEGG pathway and module enrichment analysis using clusterProfiler enrichKEGG and enrichMKEGG. Tests whether KEGG pathway...
bio-phylo-distance-calcul...
by GPTomics
Compute evolutionary distances and build phylogenetic trees using Biopython Bio.Phylo.TreeConstruction. Use for creating...
bio-read-qc-contamination...
by GPTomics
Detect sample contamination and cross-species reads using FastQ Screen. Screen reads against multiple reference genomes...
bio-codon-usage
by GPTomics
Analyze codon usage, calculate CAI (Codon Adaptation Index), and examine synonymous codon bias using Biopython. Use when...
bio-read-qc-quality-repor...
by GPTomics
Generate and interpret quality reports from FASTQ files using FastQC and MultiQC. Assess per-base quality, adapter conte...
bio-copy-number-cnvkit-an...
by GPTomics
Detect copy number variants from targeted/exome sequencing using CNVkit. Supports tumor-normal pairs, tumor-only, and ge...
bio-workflows-crispr-scre...
by GPTomics
End-to-end CRISPR screen analysis from FASTQ to hit genes. Orchestrates guide counting, QC, statistical analysis with MA...
bio-primer-design-primer-...
by GPTomics
Design PCR primers for a target sequence using primer3-py. Specify target regions, product size, melting temperature, an...
bio-crispr-screens-crispr...
by GPTomics
CRISPResso2 for analyzing CRISPR gene editing outcomes. Quantifies indels, HDR efficiency, and generates comprehensive e...
bio-fastq-quality
by GPTomics
Work with FASTQ quality scores using Biopython. Use when analyzing read quality, filtering by quality, trimming low-qual...
bio-spatial-transcriptomi...
by GPTomics
Quality control, filtering, normalization, and feature selection for spatial transcriptomics data. Calculate QC metrics,...
bio-data-visualization-ci...
by GPTomics
Create circular genome visualizations with Circos and pyCircos. Display multi-track data including ideograms, genes, var...
bio-workflows-hic-pipelin...
by GPTomics
End-to-end Hi-C analysis workflow from contact pairs to compartments, TADs, and loops. Covers cooler matrices, cooltools...
bio-metabolomics-statisti...
by GPTomics
Statistical analysis for metabolomics data. Covers univariate testing, multivariate methods (PCA, PLS-DA), and biomarker...
bio-de-results
by GPTomics
Extract, filter, annotate, and export differential expression results from DESeq2 or edgeR. Use for identifying signific...
bio-local-blast
by GPTomics
Run local BLAST searches using BLAST+ command-line tools. Use for fast unlimited searches, custom databases, large-scale...
bio-metagenomics-function...
by GPTomics
Profile functional potential of metagenomes using HUMAnN3 and similar tools. Use when you need pathway abundances, gene...
bio-expression-matrix-cou...
by GPTomics
Load gene expression count matrices from various formats including CSV, TSV, featureCounts, Salmon, kallisto, and 10X. U...
bio-data-visualization-in...
by GPTomics
Create interactive HTML plots with plotly and bokeh for exploratory data analysis and web-based sharing of omics visuali...
bio-hi-c-analysis-hic-vis...
by GPTomics
Visualize Hi-C contact matrices, TADs, loops, and genomic features using matplotlib, cooltools, and HiCExplorer. Create...
bio-proteomics-protein-in...
by GPTomics
Protein grouping and inference from peptide identifications. Handles shared peptides, protein groups, and protein-level...
bio-genome-assembly-conta...
by GPTomics
Detect contamination and assess genome quality using CheckM, CheckM2, GTDB-Tk, and GUNC for metagenome-assembled genomes...
bio-expression-matrix-gen...
by GPTomics
Convert between gene identifier systems including Ensembl, Entrez, HGNC symbols, and UniProt. Use when you need to map I...
bio-longread-qc
by GPTomics
Quality control for long-read sequencing data using NanoPlot, NanoStat, and chopper. Generate QC reports, filter reads b...