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bambi

A set of programs to manipulate SAM/BAM/CRAM files, using HTSLIB

baton

iRODS client programs and API

bcviz

JavaScript visualisation for bamcheck file format

ci-test

CI Test

containers

Singularity and Docker material

cromwell

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

extendo

An extension to baton providing a Go API for iRODS (Integrated Rule-Oriented Data System)

fsnotify

Cross-platform file system notifications for Go.

genotype-call

Explore the contents of Illumina's binary Genotype Call files

genotyping

Components of the WTSI genotype analysis pipeline.

gftools

A set of utilities to handle individual-level genotype data files

go-irodsclient

Go iRODS Client

htslib

C library for high-throughput sequencing data formats

illuminus

A genotype calling algorithm for the Illumina BeadArray platform

irods

Middleware for your critical data.

irods-legacy

Fork of DICE irods-legacy

irods_development_environment

logshim

A shim API to provide library-independent logging statements for Go projects

logshim-zerolog

logshim-zerolog is a backend using Zerolog for https://github.com/kjsanger/logshim

minknow_lims_interface

Protobuff and gRPC specifications for the MinKNOW LIMS Interface

ml-warehouse-python

ml_warehouse

Perl DBIx binding to a warehouse housing data from multiple LIM systems

ncov2019-artic-nf

A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019 - adapted to run at the Wellcome Sanger Institute

nextflow

A DSL for data-driven computational pipelines

npg-irods-python

Applications for the management of data and metadata in iRODS

npg-metadata-sync

Synchronise iRODS metadata with upstream LIMS

npg_conda

NPG Conda recipes and tools

npg_id_generation

npg_irods

Tools for managing HTS (BAM and CRAM) format files in iRODS.

npg_langqc