Tagged bioinformatics

Browse a gateway of over 400 genomics and bioinformatics skills

Produce a seven-section readiness report covering a repo and its agent harness

Inspect GEPA genomes, render their system prompts and classify failure modes

Run a GEPA learning cycle that tunes a harness genome on a SWE-bench-style slice

Run and monitor Seqera bioinformatics pipelines through the Composio Rube MCP server

Design protein assays, estimate costs and submit sequences to the Adaptyv Bio Foundry

Read, write and slice annotated single-cell matrices in h5ad and Zarr files

Infer gene regulatory networks from expression data with GRNBoost2 and GENIE3

Pull protein, pathway and chemical annotations from UniProt, KEGG and ChEMBL

Turn bulk RNA-seq FASTQ or quant output into validated gene-level count tables

Query CZ CELLxGENE Census for single-cell expression, metadata and reference atlases

Convert BAM to bigWig and plot QC, heatmaps and profiles for ChIP-seq and ATAC-seq

Analyze DepMap cancer dependency data for gene effects, biomarkers and drug sensitivity

Predict protein-ligand binding poses with DiffDock for docking and virtual screening

Build and run reproducible genomics workflows on DNAnexus with dx CLI and dxpy

Generate proteins, compute ESMC embeddings and fold structures with the ESM SDK

Review ClinGen gene-disease evidence and public literature for a germline variant

Validate BED genomic interval files and plan Region2Vec or scEmbed embedding runs

Convert genomic coordinates between BED, GFF, VCF and assembly conventions safely

Predict promoters, splice sites and expression from DNA sequence with hosted models

Query bioinformatics databases for gene info, BLAST, structures and enrichment

Scan protein sequons and plan glycan engineering and shielding workflows

Count genomic interval overlaps, build coverage and tokenize fragments with Gtars

Find and evaluate scientific datasets and models in the Hugging Science catalog

Build and deploy bioinformatics workflows on Latch with the Python SDK and Nextflow

Analyze pooled CRISPR screen reads and rank gene hits with effect sizes and FDR

Find 1000 Genomes individuals who carry variants matching gene or region criteria

Prepare and launch nf-core pacsomatic tumor-normal PacBio HiFi genomics runs

Run and interpret pathway enrichment on gene lists or ranked gene data

Align sequences and build maximum-likelihood phylogenetic trees with IQ-TREE and MAFFT

Join, merge and measure genomic intervals on Polars and read BED, VCF and BAM files

Query the PrimeKG knowledge graph for gene, drug and disease associations

Run bulk RNA-seq differential expression analysis with PyDESeq2 and Wald tests

Read, filter and write SAM, BAM, VCF and FASTQ genomic files with pysam

Run single-cell RNA-seq QC, clustering, UMAP and marker analysis with Scanpy

Estimate RNA velocity and latent time from spliced and unspliced single-cell counts

Fit scVI, scANVI and totalVI probabilistic models for single-cell omics data

Run AlphaFold, Boltz and other protein design models on Tamarind Bio via API

Store and query genomic variant calls with TileDB-VCF at cohort scale

Run nf-core pipelines for RNA-seq, WGS and ATAC-seq sequencing data

Batch-correct and integrate single-cell data with scVI and totalVI models

Run quality control and MAD filtering on single-cell RNA-seq h5ad data

Work with DNA, RNA and protein sequences, BLAST and phylogenetics using Biopython

Analyze flux distributions for gene essentiality, pathways and secretion products

Build or load genome-scale metabolic models from BiGG and export validated JSON files

Extract a brand and offer profile for paid ads from an authorized website

Score content DNA performance from publish data and suggest optimizations

Extract Douyin content DNA into reports, topic patterns and production briefs

Grow a Douyin account with positioning, content DNA, briefs and post reviews