A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
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Nov 12, 2026 - Python
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scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
python bioinformatics computational-biology metagenomics phylogenetics microbiome omics sequence-alignment multivariate-analysis compositional-data
A collection of awesome things regarding all omics.
Native R and Python sample-deletion robustness for omics: candidate certificates, minimum deletion bounds, Bioconductor model refits and donor-level pseudobulk
python bioinformatics rna-seq r cpp reproducible-research bioconductor deseq2 microarray proteomics metabolomics r-package omics single-cell edger limma robustness paired-data exact-optimization sample-influence
Development repository for the Bioconductor package 'mixOmics '
r genomics rstats bioconductor r-pkg r-package omics multivariate-analysis multivariate-statistics genomics-visualization r-project genomics-data rstats-package
Healthcare and biomedical datasets, for AI/ML
Medea: An AI agent for therapeutic reasoning across biological contexts
omics immunotherapy ai-agents target-discovery tool-use therapeutics synthetic-lethality foundation-models agentic-ai ai-scientist therapeutic-ai
Visual self-service analytics platform for big omics data.
Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
Unified knowledge-driven network inference from omics data
optimization graphs constrained-optimization milp omics network-analysis cvxpy biological-networks omics-data-integration
From geospatial to spatial -omics
r exploratory-data-analysis spatial eda rstats bioconductor r-package omics transcriptomics spatial-statistics esda spatial-transcriptomics
Scalable spatial omics in the browser for hundreds of samples at once | 10x, IMC, IF, H&E, CosMX, & more | https://rakaia.io/
browser viewer spatial spatial-analysis spatial-data omics spatial-proteomics mcd histology spatial-transcriptomics zarr visium multiplexed-imaging imaging-mass-cytometry spatial-omics xenium spatial-biology
Prize-Collecting Steiner Forests for Interactomes
Picotti lab data analysis package.
compositional data analysis toolbox
Trends in Computational Metabolomics (2021–2025)
scDataset: Scalable Data Loading for Deep Learning on Large-Scale Single-Cell Omics
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
visualization statistics longitudinal-data microbiome omics metagenomes metagenomic-analysis microbiome-analysis phyloseq dada2 omics-data-integration amplicon-sequencing microbiome-data qiime2 16s-rrna microbiome-workflow
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