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@wtsi-hgi Wellcome Trust Sanger Institute - Human Genetics Informatics

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    422 repositories

    • ibackup

      Public
      Performant backups of many files to iRODS
      Go
      •
      MIT License
      •0•0•0•3•Updated Jul 15, 2025Jul 15, 2025

    • spack-repo

      Public
      Spack Package Repository
      Python
      •
      MIT License
      •5•2•0•0•Updated Jul 15, 2025Jul 15, 2025

    • wxs-qc

      Public
      Quality control pipeline for human exome/genome cohorts
      Python
      •
      Other
      •0•3•0•1•Updated Jul 15, 2025Jul 15, 2025

    • QTLight

      Public
      eqtl analysis pipeline using tensorqtl, saige-qtl and LIMIX
      Python
      •
      GNU General Public License v3.0
      •7•10•0•0•Updated Jul 15, 2025Jul 15, 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
      •7•14•1•0•Updated Jul 14, 2025Jul 14, 2025

    • nf_splicing_qc

      Public
      a pipeline of sequencing data QC for splicing analysis
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 14, 2025Jul 14, 2025

    • softpack-admin-guide

      Public
      This document provides step-by-step instructions for creating and maintaining Spack packages as a Softpack admin
      HTML
      •0•0•0•0•Updated Jul 14, 2025Jul 14, 2025

    • nf_splicing

      Public
      A nextflow pipeline of identifying and quantifying splicing events
      R
      •
      MIT License
      •0•0•0•0•Updated Jul 14, 2025Jul 14, 2025

    • softpack-vm-setup

      Public
      Shell scripts and ansible playbooks for setup of an Openstack VM for Softpack admin (build / test)
      Shell
      •0•0•0•0•Updated Jul 14, 2025Jul 14, 2025

    • confluence-markdown-publisher

      Public
      A local command-line tool for publishing Markdown files to Atlassian Confluence with automatic conversion to Confluence-compatible format and support for creating subpages
      Python
      •0•0•0•0•Updated Jul 12, 2025Jul 12, 2025

    • wrstat-ui

      Public
      Go
      •
      MIT License
      •0•0•0•1•Updated Jul 11, 2025Jul 11, 2025

    • Jirato

      Public
      AI-Powered JIRA Ticket Creator with Ollama integration and a delightful gelato theme.
      Python
      •0•0•0•0•Updated Jul 11, 2025Jul 11, 2025

    • ollama-proxy

      Public
      A simple daemon that automatically manages Ollama GPU jobs on LSF cluster.
      Python
      •0•0•0•0•Updated Jul 10, 2025Jul 10, 2025

    • ibackup-devkit

      Public
      Go
      •
      MIT License
      •0•0•0•0•Updated Jul 9, 2025Jul 9, 2025

    • go-farmer

      Public
      Go
      •
      MIT License
      •0•0•0•1•Updated Jul 2, 2025Jul 2, 2025

    • r-spack-recipe-builder

      Public
      Spack recipe creator for R packages in CRAN and Bioconductor used to build up the ubeR module for use in farm22
      Python
      •0•0•0•0•Updated Jul 1, 2025Jul 1, 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 Jul 1, 2025Jul 1, 2025

    • softpack-builder

      Public
      SoftPack Builder provides services for building SoftPack environments
      Python
      •
      MIT License
      •0•0•1•15•Updated Jun 19, 2025Jun 19, 2025

    • softpack-docs

      Public
      SoftPack Documentation
      JavaScript
      •0•0•5•18•Updated Jun 12, 2025Jun 12, 2025

    • bsub_memory

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jun 6, 2025Jun 6, 2025

    • sarek

      Public
      Nextflow
      •
      MIT License
      •3•0•0•1•Updated Jun 5, 2025Jun 5, 2025

    • MAVEQC

      Public
      R
      •
      MIT License
      •4•0•0•0•Updated May 27, 2025May 27, 2025

    • Simple_BGE_Sample_QC

      Public
      Simple sample QC based on Hail for BGE data
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 21, 2025May 21, 2025

    • nf_tower_irods_to_lustre

      Public
      Nextflow
      •
      GNU General Public License v3.0
      •1•1•1•1•Updated May 14, 2025May 14, 2025

    • nf_vep_annotation

      Public
      Run VEP and extract variant annotations
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 13, 2025May 13, 2025

    • farmers-report

      Public
      Weekly report for farm usage
      R
      •0•0•0•1•Updated May 13, 2025May 13, 2025

    • python-baton-wrapper

      Public
      Python 3 wrapper for baton
      librarypythonbatonirods
      Python
      •
      GNU Lesser General Public License v3.0
      •0•0•3•1•Updated May 8, 2025May 8, 2025

    • admixture-from-glimpse

      Public
      Run admixture on GLIMPSE imputed genotypes to predict sample populations
      Nextflow
      •0•0•0•0•Updated May 8, 2025May 8, 2025

    • softpack-web

      Public
      Softpack Web provides a graphical user interface for Softpack services.
      reactgraphql
      TypeScript
      •
      MIT License
      •0•0•5•1•Updated May 7, 2025May 7, 2025

    • python-common

      Public
      [DEPRECATED] Python 3 common library
      librarypython
      Python
      •
      GNU Lesser General Public License v3.0
      •0•0•4•1•Updated May 2, 2025May 2, 2025
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