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    49 repositories

    • CODECsuite

      Public
      analysis pipeline for CODEC data
      C++
      •
      Other
      •7•0•0•0•Updated Feb 7, 2025Feb 7, 2025

    • fgbio

      Public
      Tools for working with genomic and high throughput sequencing data.
      genomicsngsumianalyzing-genomic-datafgbiomolecular-indexesbioinformaticsscala
      Scala
      •
      MIT License
      •70•319•90•37•Updated Feb 7, 2025Feb 7, 2025

    • fqtk

      Public
      Fast FASTQ sample demultiplexing in Rust.
      bioinformaticsgenomicsrust
      Rust
      •
      MIT License
      •2•60•6•7•Updated Feb 6, 2025Feb 6, 2025

    • pixy

      Public
      Software for painlessly estimating average nucleotide diversity within and between populations
      Python
      •
      MIT License
      •15•0•0•0•Updated Feb 5, 2025Feb 5, 2025

    • SeqLib

      Public
      C++ htslib/bwa-mem/fermi interface for interrogating sequence data
      C++
      •
      Other
      •37•0•0•0•Updated Feb 5, 2025Feb 5, 2025

    • bwa-codec

      Public
      Burrow-Wheeler Aligner for pairwise alignment between DNA sequences
      C
      •
      Apache License 2.0
      •554•0•0•0•Updated Feb 5, 2025Feb 5, 2025

    • python-snakemake-template

      Public
      A template repository for Snakemake pipepline(s) and a python command-line toolkit.
      Python
      •
      MIT License
      •0•28•6•14•Updated Feb 5, 2025Feb 5, 2025

    • fetch-through-merge-base

      Public
      A GitHub Action for fetching PR commits through the merge-base
      TypeScript
      •
      MIT License
      •0•0•0•3•Updated Feb 3, 2025Feb 3, 2025

    • pybwa

      Public
      Python language bindings for bwa
      bioinformaticsgenomics
      Cython
      •
      MIT License
      •0•4•2•0•Updated Jan 31, 2025Jan 31, 2025

    • nf-dotenv

      Public
      Automatically source dotenv files into your Nextflow scope
      dotenvnextflow
      Groovy
      •
      Other
      •0•9•1•1•Updated Jan 30, 2025Jan 30, 2025

    • bgzf

      Public
      Rust
      •0•2•0•0•Updated Jan 30, 2025Jan 30, 2025

    • rd4

      Public
      R
      •
      Other
      •1•2•5•0•Updated Jan 30, 2025Jan 30, 2025

    • fgprimer

      Public
      APIs and wrappers for performing PCR primer design related tasks
      Scala
      •
      MIT License
      •1•0•5•3•Updated Jan 30, 2025Jan 30, 2025

    • pooled-writer

      Public
      A pooled writer and compressor library in Rust.
      bioinformaticscompressionrust
      Rust
      •
      MIT License
      •0•4•0•0•Updated Jan 30, 2025Jan 30, 2025

    • cargo-ghdoc

      Public
      View Rustdocs for PRs
      Rust
      •
      MIT License
      •1•0•0•1•Updated Jan 30, 2025Jan 30, 2025

    • betabinom

      Public
      Maintained fork of `countdata`
      C
      •
      Other
      •0•0•0•0•Updated Jan 30, 2025Jan 30, 2025

    • scala-mill-template

      Public
      A template repo for a Scala project with the build tool Mill
      Scala
      •
      MIT License
      •1•0•0•0•Updated Jan 30, 2025Jan 30, 2025

    • read-structure

      Public
      read structures in rust
      Rust
      •
      MIT License
      •3•3•0•0•Updated Jan 30, 2025Jan 30, 2025

    • bwa-aln-interactive

      Public
      BWA aln interactive: Burrow-Wheeler Aligner for pairwise alignment between DNA sequences
      C
      •
      GNU General Public License v3.0
      •0•0•4•0•Updated Jan 30, 2025Jan 30, 2025

    • commons

      Public
      Common scala utilities
      Scala
      •
      MIT License
      •3•4•10•2•Updated Jan 30, 2025Jan 30, 2025

    • sopt

      Public
      An argument parsing library for Scala
      scalaargument-parsing
      Scala
      •
      MIT License
      •0•10•4•2•Updated Jan 30, 2025Jan 30, 2025

    • fgoxide

      Public
      Quality of life improvements in Rust.
      Rust
      •
      MIT License
      •3•5•3•4•Updated Jan 30, 2025Jan 30, 2025

    • guide-counter

      Public
      A better, faster way to count guides in CRISPR screens.
      bioinformaticsgenomicscrispr
      Rust
      •
      MIT License
      •3•31•8•1•Updated Jan 30, 2025Jan 30, 2025

    • pyfgaws

      Public
      Python tools and APIs for working with AWS
      pythonawsbioinformaticsaws-batchaws-logs
      Python
      •
      MIT License
      •0•9•7•1•Updated Jan 30, 2025Jan 30, 2025

    • stitch

      Public
      Stitch is a toolkit for analysis of chimeric reads in sequencing data
      Rust
      •
      MIT License
      •3•9•14•1•Updated Jan 30, 2025Jan 30, 2025

    • fgsv

      Public
      Tools to gather evidence for structural variation via breakpoint detection.
      bioinformaticsbreakpointstructural
      Scala
      •
      MIT License
      •1•19•9•2•Updated Jan 30, 2025Jan 30, 2025

    • setup-latch

      Public
      MIT License
      •1•5•5•0•Updated Jan 30, 2025Jan 30, 2025

    • pybedlite

      Public
      Lightweight Python interfaces for reading, writing, and querying Genomic Regions (BED)
      bioinformaticsgenomicsbed-filespython
      Python
      •
      Other
      •0•14•2•3•Updated Jan 30, 2025Jan 30, 2025

    • fqgrep

      Public
      Grep for FASTQ files
      rustbioinformaticsgenomicsfastq
      Rust
      •
      MIT License
      •4•95•6•6•Updated Jan 30, 2025Jan 30, 2025

    • prymer

      Public
      Python Primer Design Library
      bioinformaticsgenomicsprimer-design
      Python
      •
      MIT License
      •0•11•33•2•Updated Jan 30, 2025Jan 30, 2025