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  1. KGD KGD Public

    Kinship (genetic relatedness) using GBS (genotyping-by-sequencing) with Depth adjustment

    R 21 16

  2. GUS-LD GUS-LD Public

    Genotyping Uncertainty with Sequencing data - Linkage Disequilibrium

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  3. snpGBS snpGBS Public

    A simple bioinformatics workflow to identify single nucleotide polymorphism (SNP) from Genotyping-by-Sequencing (GBS) data.

    Jupyter Notebook 2 3

  4. data_prism data_prism Public

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  5. tardis tardis Public

    tardis

    Python 1

  6. Benchmarks Benchmarks Public

    This repository includes benchmarks that will be used to ensure the fit for purpose and to measure the performance of the Scientific Compute Platform in AgResearch.

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Repositories

Showing 10 of 45 repositories
  • gbs_prism Public

    refactored GBS processing

    AgResearch/gbs_prism’s past year of commit activity
    Python 0 1 19 0 Updated Nov 29, 2024
  • tassel3 Public

    Software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium.

    AgResearch/tassel3’s past year of commit activity
    Java 0 LGPL-2.1 0 0 0 Updated Nov 28, 2024
  • KGD Public

    Kinship (genetic relatedness) using GBS (genotyping-by-sequencing) with Depth adjustment

    AgResearch/KGD’s past year of commit activity
    R 21 GPL-2.0 16 6 0 Updated Nov 25, 2024
  • cutadapt.nix Public

    Flake for cutadapt which removes adapter sequences from sequencing reads

    AgResearch/cutadapt.nix’s past year of commit activity
    Nix 0 MIT 0 0 0 Updated Nov 6, 2024
  • wgs_prism Public

    Production and q/c for wgs sequencing runs

    AgResearch/wgs_prism’s past year of commit activity
    Python 0 1 0 0 Updated Oct 24, 2024
  • bbmap.nix Public

    Nix flake for BBMap, a short-read aligner for DNA and RNA-seq data

    AgResearch/bbmap.nix’s past year of commit activity
    Nix 0 MIT 0 0 0 Updated Oct 10, 2024
  • snakemake-playpen Public

    Learning SnakeMake

    AgResearch/snakemake-playpen’s past year of commit activity
    Nix 0 0 0 1 Updated Oct 8, 2024
  • GBS-TaFFE Public

    Analysing RE-RRSeq with GTDB taxonomic framework

    AgResearch/GBS-TaFFE’s past year of commit activity
    Python 1 MIT 1 0 0 Updated Sep 29, 2024
  • kseq_split Public

    kseq_split suite from Tardis extracted as standalone

    AgResearch/kseq_split’s past year of commit activity
    C 0 GPL-2.0 0 0 0 Updated Jun 12, 2024
  • bcl-convert.nix Public

    Nix Flake for Illumina BCL Convert

    AgResearch/bcl-convert.nix’s past year of commit activity
    Nix 0 MIT 0 0 0 Updated Apr 17, 2024

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