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configs

Config files used to define parameters specific to compute environments at different Institutions

docker-sc2reporter

Dockerized version of the sc2reporter program.

gms-artic

A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics).

gms-uploader

utility for uploading sequence and metadata to the NGP

gms_16s

A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.

gms_rd_lr

GMS Best practises for long read analysis

gms_somatic

Placeholder for solid tumor bioinformatic workflow

gmsmetapost

GMS Metagenomics post-classification

information-specifications

jasen

Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.

mag

Assembly and binning of metagenomes

meta-val

nf-core/taxprofiler post-processing; verification of classification results; consensus maps

meta-vis

Visualisation of metagenomic analysis results

micro-site-data-sharing

This repo shares data between sites for the development of GMS-micro solutions.

microbiology

A repo to collect information about all different projects we have in GMS-Micro

mimosa

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

multiqc_testdata

Test data for MultiQC. See https://github.com/ewels/MultiQC

nallo

nextflow-modules

Shared nextflow modules and assets

ngpglue

Small scripts and other similar NGP solutions of sensitive nature

ngpiris

NGPIris 👁 (intelligence and repository interface software) is a light-weight tool for interacting with a Boto3 backed Hitachi Content Platform

pgx

Pharmacogenomics pipeline

poppy

raredisease

Call and score variants from WGS/WES of rare disease patients.

raredisease_rna_workflow

sc2reporter

A web based analys tool for Sars-CoV-2 data

taxpasta

TAXnomic Profile Aggregation and STAndardisation