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    76 repositories

    • orbit

      Public
      Rust wrapper for STAR aligner
      C
      •
      MIT License
      •4•19•0•4•Updated Mar 16, 2026Mar 16, 2026

    • analysis_guides

      Public
      10x Genomics analysis guides files
      Jupyter Notebook
      •17•30•1•0•Updated Mar 13, 2026Mar 13, 2026

    • intel-mkl-src

      Public
      Redistribute Intel MKL as a crate
      Rust
      •
      Other
      •25•1•0•7•Updated Feb 20, 2026Feb 20, 2026

    • fastq-rs

      Public
      Rust
      •
      MIT License
      •15•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • bamtofastq

      Public
      Convert 10x BAM files to the original FASTQs compatible with 10x pipelines
      Rust
      •
      MIT License
      •7•67•17•10•Updated Feb 10, 2026Feb 10, 2026

    • rust-shardio

      Public
      Out-of-memory sorting of large datasets map / reduce style processing
      Rust
      •
      MIT License
      •4•47•3•3•Updated Feb 9, 2026Feb 9, 2026

    • spaceranger

      Public
      Rust
      •
      Other
      •2•21•0•2•Updated Feb 5, 2026Feb 5, 2026

    • txg-mcp

      Public
      TypeScript
      •
      MIT License
      •0•0•0•7•Updated Feb 4, 2026Feb 4, 2026

    • loupeR

      Public
      Convert Seurat objects to 10x Genomics Loupe files.
      r-package10xgenomicssingle-cell-genomics
      r-package10xgenomicssingle-cell-genomics
      R
      •
      Other
      •16•148•2•0•Updated Feb 4, 2026Feb 4, 2026

    • rules_conda

      Public
      Bazel rules for creating conda environments
      condabazel-rulesconda-environment
      condabazel-rulesconda-environmentbazel-deps
      Go
      •
      MIT License
      •1•7•3•6•Updated Dec 15, 2025Dec 15, 2025

    • cellranger

      Public
      10x Genomics Single Cell Analysis
      Rust
      •
      Other
      •103•453•0•0•Updated Dec 10, 2025Dec 10, 2025

    • spatialdata-io

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •54•3•0•0•Updated Nov 4, 2025Nov 4, 2025

    • websummary

      Public
      Generate an HTML report in Rust
      Rust
      •
      Other
      •0•5•0•2•Updated Nov 4, 2025Nov 4, 2025

    • scan-rs

      Public
      Single-cell analysis methods in Rust
      Rust
      •
      Other
      •2•30•1•1•Updated Nov 4, 2025Nov 4, 2025

    • FIt-SNE

      Public
      Fast Fourier Transform-accelerated Interpolation-based t-SNE (FIt-SNE)
      C++
      •
      Other
      •111•0•0•1•Updated Sep 24, 2025Sep 24, 2025

    • hdf5-rust

      Public
      HDF5 for Rust
      Rust
      •
      Apache License 2.0
      •115•0•0•0•Updated Sep 22, 2025Sep 22, 2025

    • hover_net

      Public
      Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.
      Python
      •
      MIT License
      •271•0•0•5•Updated Aug 22, 2025Aug 22, 2025

    • visium-hd-long-reads

      Public
      Python
      •
      Other
      •1•4•1•0•Updated Jun 27, 2025Jun 27, 2025

    • image-analysis-rs

      Public
      Rust
      •
      Other
      •0•0•0•2•Updated Jun 17, 2025Jun 17, 2025

    • HumanColonCancer_VisiumHD

      Public
      Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial …
      spatial-transcriptomicsvisiumhd
      spatial-transcriptomicsvisiumhd
      R
      •
      Other
      •11•112•8•0•Updated Jun 9, 2025Jun 9, 2025

    • rust-bwa

      Public
      Rust wrapper of the BWA C API
      Rust
      •
      MIT License
      •10•19•2•0•Updated May 23, 2025May 23, 2025

    • zarr

      Public
      Rust implementation of the Zarr N-dimensional array format.
      Rust
      •
      Apache License 2.0
      •5•2•0•1•Updated Apr 8, 2025Apr 8, 2025

    • rkm

      Public
      Generic k-means implementation written in Rust
      Rust
      •9•5•0•0•Updated Mar 20, 2025Mar 20, 2025

    • enclone

      Public
      VDJ Clonotyping & Analysis Tools
      bioinformatics
      bioinformatics
      Rust
      •
      Other
      •15•50•4•0•Updated Mar 7, 2025Mar 7, 2025

    • lz4-rs

      Public
      Rust LZ4 bindings
      Rust
      •
      MIT License
      •84•60•5•2•Updated Jan 7, 2025Jan 7, 2025

    • fastq_set

      Public archive
      Tools for working FASTQ files from sequencers (R1/R2/I1/I2)
      Rust
      •
      Other
      •3•12•0•0•Updated Dec 6, 2024Dec 6, 2024

    • fftw

      Public
      FFTW3 binding for Rust
      Rust
      •
      Other
      •29•0•0•1•Updated Oct 22, 2024Oct 22, 2024

    • seurat

      Public
      R toolkit for single cell genomics
      R
      •
      Other
      •984•4•0•0•Updated Sep 29, 2024Sep 29, 2024

    • enclone_ranger

      Public
      Core components for enclone
      Rust
      •
      Other
      •4•4•0•11•Updated Aug 1, 2024Aug 1, 2024

    • rust-debruijn

      Public
      De Bruijn graphs in Rust
      Rust
      •
      MIT License
      •18•71•2•4•Updated Jul 22, 2024Jul 22, 2024