Repositories list

• ibackup

  Public
  Performant backups of many files to iRODS

  Go

  •

  MIT License

  •0•0•0•3•Updated Nov 18, 2025Nov 18, 2025

• backup-plans

  Public
  Go

  •0•0•0•4•Updated Nov 17, 2025Nov 17, 2025

• wrstat-ui

  Public
  Go

  •

  MIT License

  •0•0•0•1•Updated Nov 17, 2025Nov 17, 2025

• rna_seq

  Public
  Nextflow

  •

  GNU General Public License v3.0

  •2•0•1•0•Updated Nov 17, 2025Nov 17, 2025

• yascp

  Public
  scRNA multimodal analysis pipeline utilised for large dataset processing - capable in handeling scRNA, scATAC, Hastag Multiplexed samples

  scrna-seq-analysis

  Python

  •

  GNU General Public License v3.0

  •8•15•0•0•Updated Nov 17, 2025Nov 17, 2025

• wxs-qc

  Public
  Quality control pipeline for human exome/genome cohorts

  Python

  •

  Other

  •0•3•0•0•Updated Nov 17, 2025Nov 17, 2025

• wtsi-hgi.github.io

  Public
  Github webpage for HGI projects

  HTML

  •0•0•0•0•Updated Nov 17, 2025Nov 17, 2025

• spack-repo

  Public
  Spack Package Repository

  Python

  •

  MIT License

  •6•2•0•1•Updated Nov 15, 2025Nov 15, 2025

• Flanders

  Public
  The fork of the Flanders pipeline. To develop and test new fucntionality required by Sanger scientific teams. We consider merging all changes to upstream after implementation and testing.

  R

  •3•0•0•0•Updated Nov 12, 2025Nov 12, 2025

• sc_analysis

  Public
  scripts for single cell multiome analysis

  R

  •

  MIT License

  •0•0•0•0•Updated Nov 12, 2025Nov 12, 2025

• gst

  Public
  GenGen Sample Tracker

  Go

  •

  MIT License

  •0•0•0•1•Updated Nov 11, 2025Nov 11, 2025

• osdataproc

  Public
  osdataproc is a command-line tool for creating an OpenStack cluster with Apache Spark and Apache Hadoop configured. It comes with JupyterLab and Hail, a genomic data analysis library built on Spark installed, as well as Netdata for monitoring.

  Jinja

  •

  Other

  •3•0•0•0•Updated Nov 10, 2025Nov 10, 2025

• softpack-docs

  Public
  SoftPack Documentation

  JavaScript

  •0•0•5•21•Updated Nov 10, 2025Nov 10, 2025

• mercuryrc

  Public
  Shell

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Nov 7, 2025Nov 7, 2025

• statter

  Public
  Go

  •0•0•0•0•Updated Nov 6, 2025Nov 6, 2025

• nf_splicing

  Public
  A nextflow pipeline of identifying and quantifying splicing events

  Python

  •

  MIT License

  •1•0•0•0•Updated Nov 3, 2025Nov 3, 2025

• softpack-web

  Public
  Softpack Web provides a graphical user interface for Softpack services.

  reactgraphql

  TypeScript

  •

  MIT License

  •0•0•5•2•Updated Oct 22, 2025Oct 22, 2025

• softpack-core

  Public
  SoftPack Core

  Python

  •

  MIT License

  •0•0•1•0•Updated Oct 19, 2025Oct 19, 2025

• nf_vep_annotation

  Public
  Run VEP and extract variant annotations

  Nextflow

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Oct 16, 2025Oct 16, 2025

• softpack-mcp

  Public
  FastAPI-based MCP server for connecting softpack spack building commands to external services and LLMs

  Python

  •0•0•0•0•Updated Oct 13, 2025Oct 13, 2025

• SSDV

  Public
  JavaScript

  •3•2•0•0•Updated Oct 1, 2025Oct 1, 2025

• softpack-builder

  Public
  SoftPack Builder provides services for building SoftPack environments

  Python

  •

  MIT License

  •0•0•1•16•Updated Oct 1, 2025Oct 1, 2025

• QTLight

  Public
  eqtl analysis pipeline using tensorqtl, saige-qtl, LIMIX, quasar and jaxQTL

  Python

  •

  GNU General Public License v3.0

  •9•14•1•0•Updated Sep 28, 2025Sep 28, 2025

• sarek

  Public
  Nextflow

  •

  MIT License

  •3•0•0•1•Updated Sep 24, 2025Sep 24, 2025

• backup-plan-ui

  Public
  A web-based user interface for managing backup plans. This application allows users to view, add, edit, and delete backup plan entries stored in a CSV file, SQLite or MySQL database..

  Go

  •

  MIT License

  •0•0•0•0•Updated Sep 22, 2025Sep 22, 2025

• nf_tower_irods_to_lustre

  Public
  Nextflow

  •

  GNU General Public License v3.0

  •1•1•1•0•Updated Sep 19, 2025Sep 19, 2025

• ibackup-devkit

  Public
  Go

  •

  MIT License

  •0•0•0•1•Updated Sep 15, 2025Sep 15, 2025

• nf_splicing_qc

  Public
  a pipeline of sequencing data QC for splicing analysis

  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 9, 2025Sep 9, 2025

• farmers-report

  Public
  Weekly report for farm usage

  R

  •0•0•0•1•Updated Sep 5, 2025Sep 5, 2025

• movie-server

  Public
  Go

  •1•0•0•0•Updated Sep 5, 2025Sep 5, 2025