Skip to content
@OpenGene

OpenGene - Open Source Genomics Toolbox

Open source tools for NGS data analysis

Pinned

  1. fastp Public

    An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

    C++ 1.5k 289

  2. MutScan Public

    Detect and visualize target mutations by scanning FastQ files directly

    C 135 39

  3. GeneFuse Public

    Gene fusion detection and visualization

    C 98 52

  4. gencore Public

    Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

    C++ 102 32

  5. repaq Public

    A fast lossless FASTQ compressor with ultra-high compression ratio

    C 103 18

  6. fastv Public

    An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.

    C++ 100 21

Repositories

  • fastp Public

    An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

    C++ 1,453 MIT 289 265 1 Updated Mar 23, 2023
  • scrnapip Public

    A Systematic and Dynamic Pipeline for Single-Cell RNA Sequencing Analysis

    R 2 0 0 0 Updated Mar 9, 2023
  • UniqueKMER Public

    Generate unique KMERs for every contig in a FASTA file

    C 34 MIT 7 3 0 Updated Aug 17, 2022
  • OpenGene.jl Public

    (No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

    Julia 63 17 8 0 Updated Jul 18, 2022
  • GeneFuse Public

    Gene fusion detection and visualization

    C 98 MIT 52 28 0 Updated Feb 21, 2022
  • MutScan Public

    Detect and visualize target mutations by scanning FastQ files directly

    C 135 MIT 39 6 0 Updated Feb 10, 2022
  • gencore Public

    Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

    C++ 102 MIT 32 36 0 Updated Oct 29, 2021
  • defastq Public

    Ultra-fast Multi-threaded FASTQ Demultiplexing

    C++ 5 MIT 0 1 0 Updated Sep 28, 2021
  • fastv Public

    An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.

    C++ 100 MIT 21 12 0 Updated Sep 29, 2020
  • IRDProc Public

    Process genomic data downloaded from influenza research database for unique k-mer generating

    Python 1 MIT 0 0 0 Updated Jul 30, 2020

Top languages

Loading…

Most used topics

Loading…