Agent skills

Other skills

Read straight from the source repositories, not from submitted listings. Every skill shows what it does, what is inside, where it came from — and whether attention around its source is actually growing.

Toolclaude-code 29,140codex 4,755cursor 3,111copilot 976windsurf 55cline 34
CategoryWorkflow & Productivity 4,979AI & Agents 3,037Data & Analytics 2,345Code Review & Quality 1,376Backend & API 1,244Security 1,194Design & Presentation 1,154Documentation 965Content & Marketing 916Testing & QA 777DevOps & Cloud 576Databases 550Frontend 469Business & Finance 328Media & Video 257Other 9,833
21,420 found
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bio-hi-c-analysis-hic-visualizationVisualize Hi-C contact matrices, TADs, loops, and genomic features using matplotlib, cooltools, and HiCExplorer. Create triangle…FreedomIntelligencescriptsbio-hi-c-analysis-matrix-operationsBalance, normalize, and transform Hi-C contact matrices using cooler and cooltools. Apply iterative correction (ICE), compute…FreedomIntelligencescriptsbio-immunoinformatics-tcr-epitope-bindingPredict TCR-epitope specificity using ERGO-II and deep learning models for T-cell receptor antigen recognition. Match TCRs to…FreedomIntelligencescriptsbio-long-read-sequencing-clair3-variantsDeep learning-based variant calling from long reads using Clair3 for SNPs and small indels. Use when calling germline variants…FreedomIntelligencescriptsbio-longitudinal-monitoringTracks ctDNA dynamics over time for treatment response monitoring using serial liquid biopsy samples. Analyzes tumor fraction…FreedomIntelligencescriptsbio-metagenomics-abundanceSpecies abundance estimation using Bracken with Kraken2 output. Redistributes reads from higher taxonomic levels to species for…FreedomIntelligencescriptsbio-metagenomics-metaphlanMarker gene-based taxonomic profiling using MetaPhlAn 4. Provides accurate species-level relative abundances using clade-specific…FreedomIntelligencescriptsbio-methylation-based-detectionAnalyzes cfDNA methylation patterns for cancer detection using cfMeDIP-seq or bisulfite sequencing with MethylDackel. Identifies…FreedomIntelligencescriptsbio-methylation-bismark-alignmentBisulfite sequencing read alignment using Bismark with bowtie2/hisat2. Handles genome preparation and produces BAM files with…FreedomIntelligencescriptsbio-molecular-descriptorsCalculates molecular descriptors and fingerprints using RDKit. Computes Morgan fingerprints (ECFP), MACCS keys, Lipinski…FreedomIntelligencescriptsbio-molecular-ioReads, writes, and converts molecular file formats (SMILES, SDF, MOL2, PDB) using RDKit and Open Babel. Handles structure…FreedomIntelligencescriptsbio-proteomics-protein-inferenceProtein grouping and inference from peptide identifications. Use when resolving protein ambiguity from shared peptides. Handles…FreedomIntelligencescriptsbio-proteomics-spectral-librariesBuild, manage, and search spectral libraries for proteomics. Use when creating or working with spectral libraries for DIA…FreedomIntelligencescriptsbio-reaction-enumerationEnumerates chemical libraries through reaction SMARTS transformations using RDKit. Generates virtual compound libraries from…FreedomIntelligencescriptsbio-read-qc-adapter-trimmingRemove sequencing adapters from FASTQ files using Cutadapt and Trimmomatic. Supports single-end and paired-end reads, Illumina…FreedomIntelligencescriptsbio-read-qc-contamination-screeningDetect sample contamination and cross-species reads using FastQ Screen. Screen reads against multiple reference genomes to…FreedomIntelligencescriptsbio-read-qc-umi-processingExtract, process, and deduplicate reads using Unique Molecular Identifiers (UMIs) with umi_tools. Use when library prep includes…FreedomIntelligencescriptsbio-ribo-seq-translation-efficiencyCalculate translation efficiency (TE) as the ratio of ribosome occupancy to mRNA abundance. Use when comparing translational…FreedomIntelligencescriptsbio-similarity-searchingPerforms molecular similarity searches using Tanimoto coefficient on fingerprints via RDKit. Finds structurally similar compounds…FreedomIntelligencescriptsbio-single-cell-splicingAnalyzes alternative splicing at single-cell resolution using BRIE2 for probabilistic PSI estimation or leafcutter2 for…FreedomIntelligencescriptsbio-spatial-transcriptomics-spatial-deconvolutionEstimate cell type composition in spatial transcriptomics spots using reference-based deconvolution. Use cell2location, RCTD…FreedomIntelligencescriptsbio-structural-biology-alphafold-predictionsAccess and analyze AlphaFold protein structure predictions. Use when predicted structures are needed for proteins without…FreedomIntelligencescriptsbio-substructure-searchSearches molecular libraries for substructure matches using SMARTS patterns with RDKit. Filters compounds by pharmacophore…FreedomIntelligencescriptsbio-tcr-bcr-analysis-vdjtools-analysisCalculate immune repertoire diversity metrics, compare samples, and track clonal dynamics using VDJtools. Use when analyzing…FreedomIntelligencescriptsbio-variant-calling-clinical-interpretationClinical variant interpretation using ClinVar, ACMG guidelines, and pathogenicity predictors. Prioritize variants for diagnostic…FreedomIntelligencescriptsbio-variant-callingCall SNPs and indels from aligned reads using bcftools mpileup and call. Use when detecting variants from BAM files or generating…FreedomIntelligencescriptsbio-variant-calling-joint-callingJoint genotype calling across multiple samples using GATK CombineGVCFs and GenotypeGVCFs. Essential for cohort studies…FreedomIntelligencescriptsbio-variant-normalizationNormalize indel representation and split multiallelic variants using bcftools norm. Use when comparing variants from different…FreedomIntelligencescriptsbio-vcf-basicsView, query, and understand VCF/BCF variant files using bcftools and cyvcf2. Use when inspecting variants, extracting specific…FreedomIntelligencescriptsbio-virtual-screeningPerforms structure-based virtual screening using AutoDock Vina 1.2 for molecular docking. Prepares receptor PDBQT files…FreedomIntelligencescriptsbio-write-sequencesWrite biological sequences to files (FASTA, FASTQ, GenBank, EMBL) using Biopython Bio.SeqIO. Use when saving sequences, creating…FreedomIntelligencescriptsbiomedical-searchComplete biomedical information search combining PubMed, preprints, clinical trials, and FDA drug labels. Powered by Valyu…FreedomIntelligencescriptsbio-methylation-bismark-alignmentBisulfite sequencing read alignment using Bismark with bowtie2/hisat2. Handles genome preparation and produces BAM files with…BioTender-maxscriptsbio-read-alignment-bowtie2-alignmentAlign short reads using Bowtie2 with local or end-to-end modes. Supports gapped alignment. Use when aligning ChIP-seq, ATAC-seq…BioTender-maxscriptsbio-read-alignment-bwa-alignmentAlign DNA short reads to reference genomes using bwa-mem2, the faster successor to BWA-MEM. Use when aligning DNA short reads to…BioTender-maxscriptscalculatorA simple calculator that can add, subtract, multiply, and divide numbers. Use when the user needs to perform basic arithmetic…EXboysscriptscar-tcoCompare the total cost of car ownership across buy-new, buy-used, lease, and keep-your-current-car — depreciation, insurance…mohitagw15856scriptsclean-vmSafely clean the local loop VM by reporting and removing stale loop runs, inactive Next.js or Storybook servers, optional browser…Eldergenixscriptsbio-variant-calling-clinical-interpretationClinical variant interpretation using ClinVar, ACMG guidelines, and pathogenicity predictors. Prioritize variants for diagnostic…BioTender-maxscriptsclinical-trials-searchSearch ClinicalTrials.gov with natural language queries. Find clinical trials, enrollment, and outcomes using Valyu semantic…FreedomIntelligencescriptsbio-crispr-screens-combinatorial-screensDesigns and analyzes combinatorial CRISPR screens covering paired-Cas9 (Big Papi, Najm 2018), enhanced AsCas12a multiplex…BioTender-maxscriptsbio-comparative-genomics-comparative-annotation-projectionProject gene annotations across genomes using TOGA (Kirilenko 2023 whole-genome-alignment chain-based projection with intactness…BioTender-maxscriptsconference-speaker-scraperExtract speaker names, titles, companies, and bios from conference websites. Supports direct HTML scraping and Apify web scraper…gooseworks-aiscriptsbio-conformer-generationGenerates 3D conformer ensembles using RDKit ETKDGv3 with knowledge-enhanced distance geometry, MMFF94/UFF force-field…BioTender-maxscriptsbio-atac-seq-consensus-peaksetBuild a differential-ready consensus peakset from per-replicate ATAC-seq peaks using iterative overlap removal, fixed-width…BioTender-maxscriptsbio-consensus-sequencesGenerate consensus FASTA sequences by applying VCF variants to a reference using bcftools consensus. Use when creating…BioTender-maxscriptsbio-crispr-screens-crispresso-editingQuantifies CRISPR editing outcomes with CRISPResso2 (Clement 2019 Nat Biotechnol) across Cas9-nuclease (indels, HDR), CBE and ABE…BioTender-maxscriptsbio-clinical-databases-dbsnp-queriesResolves rsIDs, navigates RsMergeArch/SNPHistory merge chains, and converts between rsID, SPDI, HGVS, and VCF representations…BioTender-maxscripts
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How the catalog works
What is an agent skill?

A folder with a SKILL.md inside — instructions, and often scripts and assets, that an AI agent loads when the task matches. Claude Code, Codex, Cursor and Copilot all read the same format, so one skill usually works across them.

Where does this catalog come from?

We read 660 source repositories straight from their file trees rather than from submitted listings — what you see is what is actually published. 98 repositories were rejected because they advertise skills but contain none: link lists, not folders.

Why is there no install counter?

Because install counts live in the registry that serves `npx skills add`, and that is not ours — publishing a number we cannot verify would be worse than showing none. Instead we show where a skill comes from and whether attention around its source is actually growing, measured from our own weekly snapshots.

Do you deduplicate?

Yes, and it matters more than expected. Aggregator repositories republish the same skill in several places — one source carried 6,317 SKILL.md files for 2,001 actual skills. We collapse by folder name and keep the canonical copy, so the catalog counts things, not copies.

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