wtsi-npg/npg-irods-python

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GNU General Publi...
Created over 2 years ago
Updated 4 months ago

wtsi-npg/npg-irods-python

wtsi-npg

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Applications for the management of data and metadata in iRODS

illumina2bam

Generate and process BAM files from Illumina sequencing instrument files

baton

iRODS client programs and API

npg_seq_pipeline

Processing and analysis of data coming from Illumina sequencing machines

bambi

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

Percolate

A parallel workflow management application.

npg_qc

QC checks and metrics for Illumina NGS data

genotyping

Components of the WTSI genotype analysis pipeline.

npg_ranger

NGS data streaming (sam, bam, cram, vcf) - pre-production

perl-irods-wrap

Perl iRODS Client Wrapper Library

Gftools

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

p4

Process and Pipe Pipeline Panacea

genotype-call

Explore the contents of Illumina's binary Genotype Call files

bcviz

JavaScript visualisation for bamcheck file format

npg_tracking

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

npg_docker

Prototypes of Docker-contained Pipelines

ml_warehouse

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

Illuminus

A genotype calling algorithm for the Illumina BeadArray platform

npg_porch

irods-metadata

Description of a subset of metadata used in WTSI iRODS

perl-dnap-utilities

WTSI DNA Pipelines Perl Utility Library

pb_calibration

Filter and calibration programs for Illumina BAM files

samtools-patches

patch files for various releases of samtools

valet

Automated data mangement for Oxford Nanopore DNA sequencing instruments

npg_irods

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

npg_conda

NPG Conda recipes and tools

samtools_container

Scripts to create a docker container for samtools

partisan

A Python client API for iRODS

simtools

Program to create and process SIM files

git-pom-version

Updates the version of Maven pom files using "git describe"

containers

Singularity and Docker material

npg_qc_utils

C programs extracted from npg_qc