80,000+ Skills to Supercharge Claude
The open directory for GitHub-integrated capabilities, tools, and prompts for your AI workflows.
bio-genome-intervals-gtf-...
by GPTomics
Parse, query, and convert GTF and GFF3 annotation files. Extract gene, transcript, and exon coordinates using gffread, g...
bio-flow-cytometry-gating...
by GPTomics
Manual and automated gating for defining cell populations in flow cytometry. Covers rectangular, polygon, and data-drive...
bio-alignment-validation
by GPTomics
Validate alignment quality with insert size distribution, proper pairing rates, GC bias, strand balance, and other post-...
bio-read-sequences
by GPTomics
Read biological sequence files (FASTA, FASTQ, GenBank, EMBL, ABI, SFF) using Biopython Bio.SeqIO. Use when parsing seque...
bio-variant-calling-clini...
by GPTomics
Clinical variant interpretation using ClinVar, ACMG guidelines, and pathogenicity predictors. Prioritize variants for di...
bio-spatial-transcriptomi...
by GPTomics
Analyze cell-cell communication in spatial transcriptomics data using ligand-receptor analysis with Squidpy. Infer inter...
bio-single-cell-preproces...
by GPTomics
Quality control, filtering, and normalization for single-cell RNA-seq using Seurat (R) and Scanpy (Python). Use for calc...
bio-spatial-transcriptomi...
by GPTomics
Identify spatial domains and tissue regions in spatial transcriptomics data using Squidpy and Scanpy. Cluster spots cons...
bio-format-conversion
by GPTomics
Convert between sequence file formats (FASTA, FASTQ, GenBank, EMBL) using Biopython Bio.SeqIO. Use when changing file fo...
bio-read-alignment-hisat2...
by GPTomics
Align RNA-seq reads with HISAT2, a memory-efficient splice-aware aligner. Use when STAR's memory requirements are too hi...
bio-flow-cytometry-differ...
by GPTomics
Differential abundance and state analysis for cytometry data. Compare cell populations between conditions using statisti...
bio-single-cell-markers-a...
by GPTomics
Find marker genes and annotate cell types in single-cell RNA-seq using Seurat (R) and Scanpy (Python). Use for different...
bio-imaging-mass-cytometr...
by GPTomics
Cell segmentation from multiplexed tissue images. Covers deep learning (Cellpose, Mesmer) and classical approaches for n...
bio-workflow-management-s...
by GPTomics
Build reproducible bioinformatics pipelines with Snakemake using rules, wildcards, and automatic dependency resolution....
bio-genome-intervals-bed-...
by GPTomics
BED file format fundamentals, creation, validation, and basic operations. Covers BED3 through BED12 formats, coordinate...
bio-alignment-sorting
by GPTomics
Sort alignment files by coordinate or read name using samtools and pysam. Use when preparing BAM files for indexing, var...
bio-sequence-slicing
by GPTomics
Slice, extract, and concatenate biological sequences using Biopython. Use when extracting subsequences, joining sequence...
bio-chip-seq-motif-analys...
by GPTomics
De novo motif discovery and known motif enrichment analysis using HOMER and MEME-ChIP. Identify transcription factor bin...
bio-phylo-tree-visualizat...
by GPTomics
Draw and export phylogenetic trees using Biopython Bio.Phylo with matplotlib. Use for creating publication-quality tree...
bio-differential-expressi...
by GPTomics
Remove batch effects from RNA-seq data using ComBat, ComBat-Seq, limma removeBatchEffect, and SVA for unknown batch vari...
bio-workflows-methylation...
by GPTomics
End-to-end bisulfite sequencing workflow from FASTQ to differentially methylated regions. Covers Bismark alignment, meth...
bio-single-cell-multimoda...
by GPTomics
Analyze multi-modal single-cell data (CITE-seq, Multiome, spatial). Use when working with data that measures multiple mo...
bio-crispr-screens-mageck...
by GPTomics
MAGeCK (Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout) for pooled CRISPR screen analysis. Covers count normal...
bio-multi-omics-mofa-inte...
by GPTomics
Multi-Omics Factor Analysis (MOFA2) for unsupervised integration of multiple data modalities. Identifies shared and view...