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    30 repositories

    • IsoQuant

      Public
      Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
      bioinformaticsrna-seqnanopore
      bioinformaticsrna-seqnanoporengspacbiotranscriptomics
      Python
      •
      Other
      •22•218•46•4•Updated Apr 24, 2026Apr 24, 2026

    • spades

      Public
      SPAdes Genome Assembler
      sequencingnext-generation-sequencingillumina
      sequencingnext-generation-sequencingilluminagenome-assemblysequence-assemblertranscriptome-assemblymetagenome-assembly
      C++
      •
      Other
      •159•931•291•5•Updated Apr 13, 2026Apr 13, 2026

    • viralVerify

      Public
      viralVerify: viral contig verification tool
      Python
      •
      MIT License
      •13•75•5•0•Updated Feb 19, 2026Feb 19, 2026

    • rnaquast

      Public
      Quality assessment of de novo transcriptome assemblies from RNA-Seq data
      transcriptome-assemblyquality-evaluation
      transcriptome-assemblyquality-evaluation
      Python
      •
      Other
      •6•27•8•0•Updated Nov 14, 2025Nov 14, 2025

    • nerpa

      Public
      C++
      •
      Other
      •4•18•0•3•Updated Mar 20, 2025Mar 20, 2025

    • quast-website

      Public
      Django web interface for Quast assembly assessment tool: https://github.com/ablab/quast
      HTML
      •2•6•0•0•Updated Nov 14, 2024Nov 14, 2024

    • quast

      Public
      Genome assembly evaluation tool
      visualizationbioinformaticsgenome-assembly-evaluation
      visualizationbioinformaticsgenome-assembly-evaluationcontigs
      AMPL
      •
      Other
      •88•509•83•4•Updated Nov 14, 2024Nov 14, 2024

    • metarna

      Public
      Python
      •0•0•0•2•Updated Jul 6, 2023Jul 6, 2023

    • orf-search

      Public
      ORF search on assembly graphs
      Python
      •
      Other
      •3•6•0•0•Updated Apr 12, 2023Apr 12, 2023

    • metaGT

      Public
      Pipeline for metagenome and metatranscriptome joint assembly
      metagenomicsmetatranscriptomics
      metagenomicsmetatranscriptomics
      Nextflow
      •
      MIT License
      •3•20•3•0•Updated Mar 3, 2023Mar 3, 2023

    • VerityMap

      Public
      C++
      •
      GNU General Public License v3.0
      •5•39•10•1•Updated Feb 22, 2023Feb 22, 2023

    • bioconda-recipes

      Public
      Conda recipes for the bioconda channel.
      Shell
      •
      MIT License
      •3.9k•0•0•0•Updated Jan 22, 2023Jan 22, 2023

    • graphamr

      Public
      Antibiotic prediction from metagenome assembly graphs
      Nextflow
      •2•8•3•1•Updated Sep 19, 2022Sep 19, 2022

    • stringdecomposer

      Public
      Tool for decomposition centromeric assemblies and long reads into monomers
      C++
      •
      Other
      •2•37•5•0•Updated Sep 17, 2022Sep 17, 2022

    • npdtools

      Public
      Natural Product Discovery tools -- a toolkit containing various pipelines for in silico analysis of natural product mass spectrometry data
      bioinformaticsmetabolomicsmass-spectrometry
      bioinformaticsmetabolomicsmass-spectrometrynatural-products
      9•29•4•0•Updated Aug 19, 2022Aug 19, 2022

    • quast_snakemake

      Public
      Python
      •0•2•0•0•Updated Jul 29, 2022Jul 29, 2022

    • NPvis

      Public
      Interactive visualizer for MS/MS fragmentation of natural products
      JavaScript
      •0•0•2•0•Updated Jun 21, 2022Jun 21, 2022

    • HORmon

      Public
      Python
      •
      Other
      •1•8•1•1•Updated May 6, 2022May 6, 2022

    • platform_comparison

      Public
      Comparing Platforms
      Python
      •
      Other
      •1•2•0•0•Updated Feb 2, 2022Feb 2, 2022

    • holy-build-box

      Public
      System for building cross-distribution Linux binaries
      Shell
      •
      MIT License
      •76•0•0•0•Updated Jan 31, 2022Jan 31, 2022

    • viralComplete

      Public
      viralComplete: BLAST-based viral completeness verification
      Python
      •1•23•0•0•Updated Oct 4, 2021Oct 4, 2021

    • TandemTools

      Public
      Tool for assessing/improving assembly quality in extra-long tandem repeats
      C++
      •
      Other
      •5•49•10•1•Updated Feb 23, 2021Feb 23, 2021

    • covid19_variation_analysis

      Public
      Python
      •2•1•0•0•Updated Jun 21, 2020Jun 21, 2020

    • plasmidVerify

      Public
      plasmidVerify: plasmid contig verification tool
      Python
      •3•15•2•0•Updated Apr 30, 2020Apr 30, 2020

    • y-tools

      Public
      C++
      •
      Other
      •2•3•0•1•Updated Jul 26, 2018Jul 26, 2018

    • basespace_gatk_app

      Public
      Repo for creating BaseSpace Apps
      Python
      •0•1•0•0•Updated Dec 27, 2015Dec 27, 2015

    • rectangles

      Public archive
      Python
      •
      Other
      •0•0•0•0•Updated Dec 20, 2012Dec 20, 2012

    • external-tools

      Public archive
      C++
      •0•4•0•0•Updated Mar 15, 2012Mar 15, 2012

    • TagFinder05

      Public archive
      Java
      •1•3•0•0•Updated Mar 6, 2012Mar 6, 2012

    • TagFinder

      Public archive
      Java
      •1•4•0•0•Updated Mar 6, 2012Mar 6, 2012
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