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Pysam Genomic Toolkit

K-Dense-AI/claude-scientific-skills

Pysam offers Python bindings to htslib for reading and writing SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences, enabling coverage stats, pileup analysis, variant queries, and seamless integration into NGS pipelines.

Microbiome Bioinformatics Toolkit

K-Dense-AI/claude-scientific-skills

scikit-bio provides a Python-native biological data toolkit for reading/writing FASTA/Newick files, manipulating sequences, building alignments and phylogenies, and calculating diversity metrics for microbiome and ecology workflows.

UniProt Rest Access

uniprot-database

K-Dense-AI/claude-scientific-skills

Direct REST API access to UniProt for searching proteins, fetching FASTA sequences, mapping identifiers, selecting annotations, and streaming large datasets within Python workflows.

Brazilian Auctioneers Data

junta-leiloeiros

sickn33/antigravity-awesome-skills

Aggregates official auctioneer information from all 27 Brazilian Commercial Boards into a SQLite store, exposes a FastAPI REST interface, and enables CSV/JSON exports plus customizable scraping per state.

SwanLab Experiment Tracking

experiment-tracking-swanlab

Orchestra-Research/AI-Research-SKILLs

Guides on using SwanLab for open-source ML experiment tracking, offering local or self-hosted dashboards, rich media logging, and integrations with PyTorch, Transformers, Lightning, or Fastai for comparing runs and monitoring metrics.

UniProt Protein Database API Access

uniprot-database

sickn33/antigravity-awesome-skills

Provides direct REST API access to UniProt, the premier resource for protein sequence and functional information. This skill enables users to search proteins by name, gene, or accession number, retrieve sequences in FASTA format, perform cross-database ID mapping (e.g., Ensembl, RefSeq), and analyze functional annotations (GO terms) for building comprehensive bioinformatics pipelines.

Biopython Bioinformatics Workflows

K-Dense-AI/scientific-agent-skills

Provides Biopython workflows for sequence manipulation, file parsing (FASTA/GenBank/PDB), phylogenetics, BLAST automation, structure analysis, and programmatic NCBI/PubMed access via Bio.Entrez.

Python Genomic File Processing

K-Dense-AI/scientific-agent-skills

A Python library for reading, querying, filtering, and writing genomic file formats including SAM/BAM/CRAM, VCF/BCF, FASTA/FASTQ, and tabix data. Supports pileup, coverage analysis, indexing, and CRAM reference operations with HTSlib integration. Ideal for bioinformatics workflows requiring low-level streaming access to genomic data.

Scikit-Bio Bioinformatics Toolkit

K-Dense-AI/scientific-agent-skills

Python toolkit for biological data: sequence manipulation, pairwise and multiple alignment, phylogenetic trees, alpha/beta diversity and UniFrac metrics, ordination (PCoA), PERMANOVA, and FASTA/Newick/BIOM I/O for microbiome analysis.

Brazilian Auctioneers Data

junta-leiloeiros

sickn33/agentic-awesome-skills

Aggregates official auctioneer information from all 27 Brazilian Commercial Boards into a SQLite store, exposes a FastAPI REST interface, and enables CSV/JSON exports plus customizable scraping per state.

UniProt Protein Database API

uniprot-database

sickn33/agentic-awesome-skills

Query the UniProt REST API for protein sequences and annotations. Search by gene, accession or organism, fetch FASTA files, map IDs across Ensembl, RefSeq and PDB, customize returned fields, and stream large datasets programmatically.

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