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    • vg

      Public
      tools for working with genome variation graphs
      C++
      Other
      1941.1k82610Updated Nov 25, 2024Nov 25, 2024
    • libbdsg

      Public
      Optimized sequence graph implementations for graph genomics
      C++
      MIT License
      633247Updated Nov 23, 2024Nov 23, 2024
    • libvgio

      Public
      A dynamic library that provides io for the vg toolkit.
      C++
      Other
      7860Updated Nov 22, 2024Nov 22, 2024
    • Easy installation for libbdsg
      Makefile
      2000Updated Nov 22, 2024Nov 22, 2024
    • Experimental materials for testing the long-read mapping abilities of vg giraffe
      Python
      Other
      04200Updated Nov 22, 2024Nov 22, 2024
    • Library for the Handle Graph abstraction
      C++
      MIT License
      521152Updated Nov 21, 2024Nov 21, 2024
    • displays multiple genomic sequences in the form of a tube map
      JavaScript
      MIT License
      26182829Updated Nov 20, 2024Nov 20, 2024
    • toil-vg

      Public
      Distributed and cloud computing framework for vg
      Python
      Apache License 2.0
      1421456Updated Nov 5, 2024Nov 5, 2024
    • sdsl-lite

      Public
      Succinct Data Structure Library 2.0
      C++
      Other
      349801Updated Nov 4, 2024Nov 4, 2024
    • vg_wdl

      Public
      Workflow Description Language (WDL) scripts for common vg workflows
      WDL
      MIT License
      919102Updated Oct 30, 2024Oct 30, 2024
    • Calculates the probability of a haplotype given a population reference panel
      C++
      6000Updated Oct 30, 2024Oct 30, 2024
    • Snakemake workflow for the vg toolkit.
      Python
      GNU General Public License v3.0
      4800Updated Sep 30, 2024Sep 30, 2024
    • For bluntifying overlapped GFAs
      C++
      01341Updated Jul 26, 2024Jul 26, 2024
    • dozeu

      Public
      SIMD-parallel BLAST X-drop DP on sequence graphs
      C
      7100Updated May 30, 2024May 30, 2024
    • Shell
      74160Updated May 8, 2024May 8, 2024
    • xg

      Public
      xg0: a simpler xg index
      C++
      Other
      4561Updated Apr 22, 2024Apr 22, 2024
    • htslib

      Public
      C library for high-throughput sequencing data formats
      C
      Other
      446000Updated Mar 26, 2024Mar 26, 2024
    • vcflib

      Public
      a simple C++ library for parsing and manipulating VCF files, + many command-line utilities
      C++
      MIT License
      221101Updated Oct 2, 2023Oct 2, 2023
    • Prebaked Docker image to speed up VG CI
      Dockerfile
      MIT License
      0000Updated Jun 18, 2023Jun 18, 2023
    • dind

      Public
      Docker in Docker
      Shell
      Apache License 2.0
      559000Updated Jun 18, 2023Jun 18, 2023
    • WFA2-lib

      Public
      WFA2-lib: Wavefront alignment algorithm library v2
      C
      Other
      36000Updated Apr 25, 2023Apr 25, 2023
    • C
      115001Updated Dec 2, 2022Dec 2, 2022
    • Scripts for the haplotype-aware mapping paper project
      Shell
      MIT License
      0010Updated Sep 28, 2022Sep 28, 2022
    • A collection of c++ data structures I've coded up for various projects
      C++
      Apache License 2.0
      4100Updated Apr 28, 2022Apr 28, 2022
    • SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.
      C++
      GNU General Public License v3.0
      6000Updated Mar 6, 2022Mar 6, 2022
    • Contains scripts for generating variant graphs for a whole bunch of yeast strains. Pan-genomics in every sense of the word.
      Jupyter Notebook
      2000Updated Mar 6, 2022Mar 6, 2022
    • libsnarls

      Public
      Library for working with variable sites in handle graphs
      C++
      MIT License
      1100Updated Mar 4, 2022Mar 4, 2022
    • gssw

      Public
      efficient alignment of strings to partially ordered string graphs
      C
      173322Updated Jan 31, 2022Jan 31, 2022
    • gfakluge

      Public
      A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
      C++
      MIT License
      20100Updated Oct 4, 2021Oct 4, 2021
    • DYNAMIC

      Public
      Dynamic succinct/compressed data structures
      C++
      MIT License
      21100Updated Jul 12, 2021Jul 12, 2021