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Search Informatics , found 34 results

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Biopython Molecular Toolkit

K-Dense-AI/claude-scientific-skills

Biopython provides Python APIs for sequence manipulation, database access, BLAST automation, structural bioinformatics, and phylogenetics, making it ideal for scripting custom pipelines and batch processing in computational molecular biology workflows.

BioServices Cross-DB API

K-Dense-AI/claude-scientific-skills

BioServices provides Python wrappers for 40+ bioinformatics services, allowing cross-database queries, identifier mapping, pathway exploration, and sequence or compound research within consistent workflows.

COSMIC Mutation Access

cosmic-database

K-Dense-AI/claude-scientific-skills

Programmatic access to the COSMIC cancer mutation database for downloading mutations, Cancer Gene Census, mutational signatures, fusions, copy number, expression, and resistance data to fuel oncology research or bioinformatics pipelines after authentication.

Datamol Cheminformatics Helper

K-Dense-AI/claude-scientific-skills

Datamol wraps RDKit with Pythonic APIs tailored for drug discovery, offering SMILES/SELFIES/InChI parsing, standardization, descriptor and fingerprint calculation, clustering, 3D conformer workflows, and parallel/cloud-aware batch I/O while returning native rdkit.Chem.Mol objects.

ENA Sequence Access

K-Dense-AI/claude-scientific-skills

Access the European Nucleotide Archive via REST/FTP to fetch DNA/RNA sequences, raw reads, assemblies, annotations, and taxonomy for research or bioinformatics pipelines.

Unified Bioinformatics Query

K-Dense-AI/claude-scientific-skills

gget is a CLI/Python client that unifies querying over 20+ bioinformatics databases, letting researchers fetch gene info, sequences, BLAST results, structures, and enrichment data interactively or within scripts.

Latch Bioinformatics Workflows

latchbio-integration

K-Dense-AI/claude-scientific-skills

LatchBio Integration provides a Python-first platform to compose, deploy, and monitor serverless bioinformatics pipelines with the Latch SDK, decorator-based tasks, cloud storage (LatchFile/Dir), GPU tuning, and Nextflow or Snakemake interoperability.

PubChem Database Query

pubchem-database

K-Dense-AI/claude-scientific-skills

Leverages PubChem’s PUG-REST API or PubChemPy to search 110M+ compounds by name, CID, or structure, fetch properties, perform similarity/substructure lookups, and access bioactivity or format conversions for cheminformatics workflows.

Advanced Molecular Control

K-Dense-AI/claude-scientific-skills

RDKit delivers a Python-based cheminformatics toolkit for parsing SMILES/SDF, computing descriptors, generating 2D/3D coordinates, fingerprinting, searching substructures, managing reactions, and visualizing molecules, ideal for drug discovery and computational chemistry workflows.

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.

Polars Bio Genomics Toolkit

K-Dense-AI/claude-scientific-skills

polars-bio accelerates genomic interval math and bioinformatics I/O by combining Polars, Arrow, and DataFusion to handle BED/VCF/BAM/GFF/FASTA streams, SQL queries, and cloud storage with overlap, coverage, and nearest APIs plus streaming fallbacks.

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.

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