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@COMBINE-lab

COMBINE lab

COMputational BIology and Network Evolution lab

Popular repositoriesLoading

  1. salmonsalmonPublic

    🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

    C++ 795 166

  2. alevin-fryalevin-fryPublic

    🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

    Rust 178 16

  3. pufferfishpufferfishPublic

    An efficient index for the colored, compacted, de Bruijn graph

    C 107 21

  4. RapMapRapMapPublic

    Rapid sensitive and accurate read mapping via quasi-mapping

    C++ 89 23

  5. cuttlefishcuttlefishPublic

    Building the compacted de Bruijn graph efficiently from references or reads.

    C++ 86 11

  6. oarfishoarfishPublic

    long read RNA-seq quantification

    Rust 77 4

Repositories

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Showing 10 of 121 repositories
  • QCatch Public

    Quality Control downstream of alevin-fry / simpleaf

    COMBINE-lab/QCatch’s past year of commit activity
    0BSD-3-Clause0 0 0 UpdatedMar 13, 2025
  • oarfish Public

    long read RNA-seq quantification

    COMBINE-lab/oarfish’s past year of commit activity
    Rust 77BSD-3-Clause 4 5 1 UpdatedMar 12, 2025
  • seqcol_rs Public

    (unofficial) Rust implementation of SeqCol sequence collections

    COMBINE-lab/seqcol_rs’s past year of commit activity
    Rust0BSD-3-Clause0 0 0 UpdatedMar 12, 2025
  • COMBINE-lab/combine-lab.github.io’s past year of commit activity
    HTML 8 7 0 1 UpdatedMar 7, 2025
  • simpleaf Public

    A rust framework to make using alevin-fry even simpler

    COMBINE-lab/simpleaf’s past year of commit activity
    Rust 51BSD-3-Clause 5 13 0 UpdatedMar 5, 2025
  • af-anndata Public

    alevin-fry related processing of AnnData

    COMBINE-lab/af-anndata’s past year of commit activity
    Rust0BSD-3-Clause0 1 0 UpdatedMar 3, 2025
  • alevin-fry Public

    🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

    COMBINE-lab/alevin-fry’s past year of commit activity
    Rust 178BSD-3-Clause 16 21 0 UpdatedMar 3, 2025
  • seqproc Public
    COMBINE-lab/seqproc’s past year of commit activity
    Rust 4BSD-3-Clause 1 4 0 UpdatedFeb 25, 2025
  • COMBINE-lab/cuttlefish-private’s past year of commit activity
    C++ 3BSD-3-Clause0 0 0 UpdatedFeb 8, 2025
  • cuttlefish Public

    Building the compacted de Bruijn graph efficiently from references or reads.

    COMBINE-lab/cuttlefish’s past year of commit activity
    C++ 86BSD-3-Clause 11 17 5 UpdatedFeb 8, 2025

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