Repositories list

• wgs_prism

  Public
  Production and q/c for wgs sequencing runs

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Mar 19, 2026Mar 19, 2026

• gbs_prism

  Public
  refactored GBS processing

  Python

  •00 forks•00 stars•1111 issues•00 pull requests•Updated Mar 19, 2026Mar 19, 2026

• GBS-TaFFE

  Public
  Analysing RE-RRSeq with GTDB taxonomic framework

  Python

  •

  MIT License

  •11 fork•11 star•00 issues•00 pull requests•Updated Feb 24, 2026Feb 24, 2026

• SMK-MAUI-seq

  Public
  Fork of MAUI-seq for use at AgResearch

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 10, 2026Feb 10, 2026

• redun_psij

  Public
  PSI/J Executor for Redun

  Python

  •

  Apache License 2.0

  •00 forks•22 stars•00 issues•00 pull requests•Updated Dec 12, 2025Dec 12, 2025

• redun.nix

  Public
  A flake package for redun

  Nix

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 14, 2025Nov 14, 2025

• tassel3

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

  Java

  •

  GNU Lesser General Public License v2.1

  •00 forks•00 stars•11 issue•00 pull requests•Updated Nov 14, 2025Nov 14, 2025

• KGD

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

  R

  •

  GNU General Public License v2.0

  •1616 forks•2121 stars•88 issues•00 pull requests•Updated Oct 28, 2025Oct 28, 2025

• MIE

  Public
  Methane Index Explorer (MIE): Estimating Response to Selection for Methane Emissions

  R

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 18, 2025Oct 18, 2025

• redun

  Public
  Yet another redundant workflow engine

  Python

  •

  Apache License 2.0

  •5353 forks•00 stars•00 issues•00 pull requests•Updated Oct 16, 2025Oct 16, 2025

• emacs.d

  Public archive
  Local tweaks to Steve Purcell's Emacs configuration

  Emacs Lisp

  •

  BSD 2-Clause "Simplified" License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 5, 2025Aug 5, 2025

• genomics-prediction-app

  Public
  Interactive Shiny app for genomic prediction analysis

  R

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 29, 2025Jun 29, 2025

• seffs

  Public
  Report on the efficiency of Slurm jobs, like seff for multiple jobs

  Elvish

  •11 fork•22 stars•00 issues•00 pull requests•Updated Jun 6, 2025Jun 6, 2025

• GUS-LD

  Public
  Genotyping Uncertainty with Sequencing data - Linkage Disequilibrium

  R

  •

  GNU General Public License v3.0

  •22 forks•44 stars•00 issues•00 pull requests•Updated Feb 20, 2025Feb 20, 2025

• bbmap.nix

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

  Nix

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 26, 2025Jan 26, 2025

• GBSX

  Public
  GBSX: a toolkit for experimental design and demultiplexing genotyping by sequencing experiments

  Java

  •

  GNU General Public License v3.0

  •66 forks•00 stars•00 issues•00 pull requests•Updated Jan 15, 2025Jan 15, 2025

• bcl-convert.nix

  Public
  Nix Flake for Illumina BCL Convert

  Nix

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Dec 2, 2024Dec 2, 2024

• cutadapt.nix

  Public
  Flake for cutadapt which removes adapter sequences from sequencing reads

  Nix

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 6, 2024Nov 6, 2024

• snakemake-playpen

  Public
  Learning SnakeMake

  Nix

  •00 forks•00 stars•00 issues•11 pull request•Updated Oct 8, 2024Oct 8, 2024

• kseq_split

  Public
  kseq_split suite from Tardis extracted as standalone

  C

  •

  GNU General Public License v2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 12, 2024Jun 12, 2024

• GBS_Gender_Predict

  Public
  Using genotyping-by-sequencing to predict gender in animals

  HTML

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 11, 2024Apr 11, 2024

• seq_prisms

  Public
  Quality control analyses and plots for pools of sequence files

  Python

  •

  GNU General Public License v3.0

  •22 forks•00 stars•00 issues•00 pull requests•Updated Oct 16, 2023Oct 16, 2023

• tardis

  Public
  tardis

  Python

  •

  GNU General Public License v2.0

  •00 forks•11 star•2323 issues•00 pull requests•Updated Sep 13, 2023Sep 13, 2023

• melseq_prism

  Public
  melseq prism

  Shell

  •

  GNU General Public License v3.0

  •11 fork•00 stars•44 issues•00 pull requests•Updated Aug 22, 2023Aug 22, 2023

• batch_qiime_prism

  Public
  runs batch qiime-based clustering and annotation

  Shell

  •

  GNU General Public License v3.0

  •00 forks•11 star•22 issues•00 pull requests•Updated Aug 21, 2023Aug 21, 2023

• snakemake_example

  Public
  forked_1

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 6, 2023Jul 6, 2023

• data_prism

  Public
  R

  •

  GNU General Public License v3.0

  •00 forks•11 star•11 issue•00 pull requests•Updated Sep 13, 2022Sep 13, 2022

• snpGBS

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

  snpgbs

  snpgbs

  Jupyter Notebook

  •

  MIT License

  •33 forks•22 stars•00 issues•00 pull requests•Updated Oct 29, 2021Oct 29, 2021

• brdf

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 16, 2020Oct 16, 2020

• shinyproxy-config-examples

  Public
  Configuration examples for ShinyProxy

  HTML

  •106106 forks•00 stars•00 issues•00 pull requests•Updated Sep 25, 2020Sep 25, 2020