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    84 repositories

    • npg-irods-python

      Public
      Applications for the management of data and metadata in iRODS
      Python
      •
      GNU General Public License v3.0
      •9•1•1•3•Updated May 4, 2025May 4, 2025

    • npg_notifications

      Public
      Python
      •4•0•2•5•Updated May 4, 2025May 4, 2025

    • npg-python-lib

      Public
      A library of Python functions and classes common to NPG applications
      Python
      •
      GNU General Public License v3.0
      •1•0•0•1•Updated May 4, 2025May 4, 2025

    • partisan

      Public
      A Python client API for iRODS
      Python
      •
      GNU General Public License v3.0
      •4•1•0•1•Updated May 4, 2025May 4, 2025

    • sqyrrl

      Public
      Sqyrrl - an HTTP server for files hosted in iRODS
      Go
      •
      GNU General Public License v3.0
      •3•1•1•1•Updated May 1, 2025May 1, 2025

    • containers

      Public
      Singularity and Docker material
      Shell
      •6•1•7•0•Updated Apr 30, 2025Apr 30, 2025

    • valet

      Public
      Automated data mangement for Oxford Nanopore DNA sequencing instruments
      nanoporebatonirodsoxford-nanoporegridionextendopromethion
      Go
      •
      GNU General Public License v3.0
      •4•2•4•1•Updated Apr 29, 2025Apr 29, 2025

    • perl-irods-wrap

      Public
      Perl iRODS Client Wrapper Library
      irodsperl
      Perl
      •20•4•12•0•Updated Apr 29, 2025Apr 29, 2025

    • baton

      Public
      iRODS client programs and API
      C
      •
      GNU General Public License v2.0
      •19•19•11•0•Updated Apr 29, 2025Apr 29, 2025

    • npg_irods

      Public
      Tools for managing HTS (BAM and CRAM) format files in iRODS.
      Perl
      •
      GNU General Public License v3.0
      •17•2•17•2•Updated Apr 29, 2025Apr 29, 2025

    • extendo

      Public
      An extension to baton providing a Go API for iRODS (Integrated Rule-Oriented Data System)
      batonirods
      Go
      •
      GNU General Public License v3.0
      •3•0•0•1•Updated Apr 29, 2025Apr 29, 2025

    • p4

      Public
      Process and Pipe Pipeline Panacea
      Perl
      •14•3•9•8•Updated Apr 25, 2025Apr 25, 2025

    • npg_seq_pipeline

      Public
      Processing and analysis of data coming from Illumina sequencing machines
      Perl
      •17•10•23•8•Updated Apr 17, 2025Apr 17, 2025

    • npg_porch

      Public
      Python
      •
      GNU General Public License v3.0
      •4•2•10•0•Updated Apr 17, 2025Apr 17, 2025

    • nanoplexer

      Public
      Tool for demultiplexing Nanopore barcode sequence data
      C
      •
      MIT License
      •4•0•0•0•Updated Apr 17, 2025Apr 17, 2025

    • npg_porch_cli

      Public
      A command-line client to enable communication with the npg_porch API.
      Python
      •4•0•1•0•Updated Apr 8, 2025Apr 8, 2025

    • genotyping

      Public
      Components of the WTSI genotype analysis pipeline.
      Perl
      •6•5•11•0•Updated Apr 4, 2025Apr 4, 2025

    • logshim-zerolog

      Public
      logshim-zerolog is a backend using Zerolog for https://github.com/wtsi-npg/logshim
      Go
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Apr 4, 2025Apr 4, 2025

    • ml_warehouse

      Public
      Perl DBIx binding to a warehouse housing data from multiple LIM systems
      Perl
      •14•3•1•0•Updated Apr 2, 2025Apr 2, 2025

    • irods-metadata

      Public
      Description of a subset of metadata used in WTSI iRODS
      2•2•0•0•Updated Mar 29, 2025Mar 29, 2025

    • hrr_tools

      Public
      Framework used to help with evaluating tools for the removal of human contaminated reads in DNA sequencing data
      Nextflow
      •0•1•0•0•Updated Mar 27, 2025Mar 27, 2025

    • npg_ml_warehouse

      Public
      Analysis results loader for the multi-lims warehouse, see ml_warehouse project for the warehouse details.
      Perl
      •13•0•9•0•Updated Mar 12, 2025Mar 12, 2025

    • npg_tracking

      Public
      WTSI Illumina sequencing instruments (HiSeq, MiSeq, GA) tracking
      Perl
      •19•3•12•2•Updated Mar 10, 2025Mar 10, 2025

    • npg_seq_melt

      Public
      Operations on processed sequencing data (merges, metadata updates for the archive, etc.)
      Perl
      •8•0•5•0•Updated Mar 10, 2025Mar 10, 2025

    • logshim

      Public
      A shim API to provide library-independent logging statements for Go projects
      Go
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Mar 10, 2025Mar 10, 2025

    • samtools_container

      Public
      Scripts to create a docker container for samtools
      Shell
      •7•1•3•1•Updated Mar 3, 2025Mar 3, 2025

    • npg_id_generation

      Public
      Python
      •
      GNU General Public License v3.0
      •5•0•1•1•Updated Feb 24, 2025Feb 24, 2025

    • kneaddata_bmtagger

      Public
      Dockerfile
      •
      MIT License
      •1•0•0•0•Updated Feb 20, 2025Feb 20, 2025

    • npg_qc

      Public
      QC checks and metrics for Illumina NGS data
      Perl
      •18•6•20•0•Updated Feb 20, 2025Feb 20, 2025

    • perl-dnap-utilities

      Public
      WTSI DNA Pipelines Perl Utility Library
      Perl
      •
      GNU General Public License v3.0
      •11•2•0•0•Updated Jan 16, 2025Jan 16, 2025