QC checks and metrics for Illumina NGS data

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

Processing and analysis of data coming from Illumina sequencing machines

Applications for the management of data and metadata in iRODS

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

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

Operations on processed sequencing data (merges, metadata updates for the archive, etc.)

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

Perl iRODS Client Wrapper Library

Process and Pipe Pipeline Panacea

Description of a subset of metadata used in WTSI iRODS

WTSI DNA Pipelines Perl Utility Library

NPG Conda recipes and tools

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

Utilities for handling NGS data

C programs extracted from npg_qc

Updated version of the RNA-SeQC software

The open source JavaScript graphing library that powers plotly

A flexible tool for defining the contents of 96 well plates.

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

Interactive in-browser track viewer

A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.

Generate and process BAM files from Illumina sequencing instrument files

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

Conversion of nano pore HDF5 to FastQ