Wellcome Sanger Institute - NPG

baton

iRODS client programs and API

bambi

Process Illumina instrument data into SAM/BAM/CRAM files.

npg_seq_pipeline

Processing and analysis of data coming from Illumina sequencing machines

genotyping

Components of the WTSI genotype analysis pipeline.

npg_qc

QC checks and metrics for Illumina NGS data

perl-irods-wrap

Perl iRODS Client Wrapper Library

bcviz

JavaScript visualisation for bamcheck file format

ml_warehouse

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

npg_tracking

WTSI Illumina sequencing instruments (HiSeq, MiSeq, GA) tracking

p4

Process and Pipe Pipeline Panacea

irods-metadata

Description of a subset of metadata used in WTSI iRODS

npg_irods

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

npg_porch

valet

Automated data mangement for Oxford Nanopore DNA sequencing instruments

containers

Singularity and Docker material

logshim-zerolog

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

npg-irods-python

Applications for the management of data and metadata in iRODS

partisan

A Python client API for iRODS

samtools_container

Scripts to create a docker container for samtools

extendo

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

build-irods-client-action

GitHub Action providing a custom Docker container in which to build iRODS clients

go-irodsclient

Go iRODS Client

npg_langqc

npg_ml_warehouse

Analysis results loader for the multi-lims warehouse, see ml_warehouse project for the warehouse details.

npg_notifications

npg_porch_cli

A command-line client to enable communication with the npg_porch API.

npg_sentry

npg_seq_common

Utilities for handling NGS data

npg_sequencescape_warehouse

Old sequencescape warehouse: DBIx binding, loader, LIMs driver for st::api::lims

sqyrrl

Sqyrrl - an HTTP server for files hosted in iRODS