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@Shuhua-Group

Shuhua-Group

Population Omics

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  1. ArchaicSeeker2.0 ArchaicSeeker2.0 Public

    ArchaicSeeker is a series of software for detecting archaic introgression sequences and reconstructing introgression history. The latest version of this series, ArchaicSeeker 2.0, has the following…

    C++ 16 4

  2. Y-LineageTracker Y-LineageTracker Public

    A high-throughput analysis framework for Y-chromosomal next-generation sequencing data

    C 9 5

  3. MultiWaver2.0 MultiWaver2.0 Public

    MultiWaver series software was designed to infer population admixture history in case of various and complex scenarios. The earlier version of MultiWaver considered only the discrete admixture mode…

    C++ 2

  4. NGS.PRSS1-2caller NGS.PRSS1-2caller Public

    NGS.PRSS1-2caller is a toolkit for calling genetic variants at PRSS1-PRSS2 locus, which enables detecting SNV, INDEL and CNV with high accuracy and sensitivity.

    Python 1 3

Repositories

Showing 10 of 41 repositories
  • HierarchyMix Public

    reconstruct the 4-way complex admixture history

    Shuhua-Group/HierarchyMix’s past year of commit activity
    Python 2 0 0 0 Updated Jul 15, 2024
  • HERV-identification-and-calling-pipeline Public
    Shuhua-Group/HERV-identification-and-calling-pipeline’s past year of commit activity
    Python 0 0 0 0 Updated Jun 7, 2024
  • CHIP-mutation-calling-NGS-pipeline Public

    This pipeline based on snakemake calls CHIP variants from next-generation whole-exome/genome sequencing of human samples and produces a purely filtered VCF file containing high confident CHIP mutations.

    Shuhua-Group/CHIP-mutation-calling-NGS-pipeline’s past year of commit activity
    1 1 1 0 Updated Jun 7, 2024
  • AncestryPainterV2 Public

    An updated version of AncestryPainterV1, a graphing tool to display ancestry composition and genetic difference.

    Shuhua-Group/AncestryPainterV2’s past year of commit activity
    R 0 GPL-3.0 0 0 0 Updated May 13, 2024
  • Genetic-characteristics-of-the-Han100K-initiative Public

    We calculated pairwise FST and Ancestry components for each provincial population.

    Shuhua-Group/Genetic-characteristics-of-the-Han100K-initiative’s past year of commit activity
    0 GPL-3.0 0 0 0 Updated Mar 15, 2024
  • Calculate.genetic.distance Public

    This script can calculate the genetic distances of given variants based on their physical positions and genetic map files.

    Shuhua-Group/Calculate.genetic.distance’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Mar 3, 2024
  • SVanalysis_STARProtocols Public

    A protocol for applying low-coverage whole-genome sequencing data in structure variation studies

    Shuhua-Group/SVanalysis_STARProtocols’s past year of commit activity
    Shell 1 0 0 0 Updated Feb 28, 2024
  • Construct-ancestral-genome Public
    Shuhua-Group/Construct-ancestral-genome’s past year of commit activity
    Python 4 GPL-3.0 0 0 0 Updated Jan 13, 2024
  • PanGenome_VCF_PostProcess Public

    A simple pipeline to process the VCF deconstructed from the VG pangenome graph

    Shuhua-Group/PanGenome_VCF_PostProcess’s past year of commit activity
    Python 3 1 0 0 Updated Nov 9, 2023
  • ArchaicSeeker2.0 Public

    ArchaicSeeker is a series of software for detecting archaic introgression sequences and reconstructing introgression history. The latest version of this series, ArchaicSeeker 2.0, has the following three notable improvements compared with the original version of this software. First, it can automatically determine the boundary of each introgress…

    Shuhua-Group/ArchaicSeeker2.0’s past year of commit activity
    C++ 16 GPL-3.0 4 2 0 Updated Oct 20, 2023
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