Results for “bio”
16 skills
antigravity biopython
Provides Python tools for biological computation, including sequence manipulation, file I/O, database access, structural bioinformatics, and phylogenetics.
42.4k
gabrielmoreira polars-bio
Perform fast genomic interval operations (overlap, nearest, merge, coverage, cluster, complement, subtract, count-overlaps), multi-format bioinformatics I/O, DataFusion SQL, and pileup on Polars DataFrames via the polars-bio library, serving as a scalable alternative to bioframe and bedtools.
17 · bundle
k-dense-ai lamindb
Manage biological datasets and models with LaminDB, an open-source lineage-native lakehouse. Covers setup, artifact registration, query/search, lineage tracking, validation, ontology-backed annotation, collections, branches, storage, and workflow integrations.
30.2k · bundle
k-dense-ai polars-bio
Perform high-performance genomic interval operations and bioinformatics file I/O on Polars DataFrames, including overlap, nearest, merge, coverage, complement, subtract, and reading/writing BED, VCF, BAM, GFF, FASTA, and FASTQ formats with streaming and cloud-native support.
30.2k · bundle
k-dense-ai primekg
Query the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biological data including genes, drugs, diseases, phenotypes, and more.
30.2k · bundle
k-dense-ai gget
Query 20+ bioinformatics databases from the command line or Python for gene information, sequences, protein structures, enrichment analysis, and more.
30.2k · bundle
More results
gabrielmoreira labstep
Queries and displays Labstep electronic lab notebook data — experiments, protocols, resources, and inventory — via labstepPy, with an offline demo mode using synthetic biology data.
17 · bundle
k-dense-ai cobrapy
Perform constraint-based metabolic modeling with COBRApy: run FBA, FVA, gene knockouts, flux sampling, and manage SBML models for systems biology and metabolic engineering.
30.2k · bundle
k-dense-ai clinical-decision-support
Generate professional clinical decision support documents for pharmaceutical and clinical research, including biomarker-stratified cohort analyses and evidence-based treatment recommendation reports with GRADE grading, statistical analysis, and publication-ready LaTeX/PDF output.
30.2k · bundle
k-dense-ai bids
Organize, query, validate, and convert neuroscience and biomedical data using the Brain Imaging Data Structure (BIDS) standard.
30.2k · bundle
gabrielmoreira fastreer
Computes phylogenetic distance matrices and trees from genomic VCF or FASTA data using the fastreeR hybrid Java/Python toolkit.
17 · bundle
gabrielmoreira hla-typing
Performs HLA allele genotyping from WGS/WES VCF data, producing a structured markdown report and machine-readable JSON results.
17 · bundle
k-dense-ai arboreto
Infer gene regulatory networks from gene expression data using scalable algorithms (GRNBoost2, GENIE3) with support for distributed computation.
30.2k · bundle
gabrielmoreira rnaseq-de
Performs differential expression analysis on bulk RNA-seq or pseudo-bulk count matrices with QC, PCA, and contrast testing.
17 · bundle
k-dense-ai pysam
Read, write, and manipulate genomic datasets including SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences using a Pythonic interface to htslib.
30.2k · bundle
k-dense-ai depmap
Query the Cancer Dependency Map (DepMap) for cancer cell line gene dependency scores, drug sensitivity data, and gene effect profiles to identify cancer-specific vulnerabilities, synthetic lethal interactions, and validate oncology drug targets.
30.2k · bundle