umccr Goto Github PK

data-portal-apis

UMCCR Data Portal API Backend in cloud native serverless

data-portal-client

UMCCR Data Portal Frontend

data-portal-status-page

didact

Prototype vehicle for DAC (data access committee) process experimentation

docker-emscripten-crypt4gh

Docker image for compiling crypt4gh applications built with emscripten into wasm

docker-who

A miscellaneous set of UMCCR dockerfiles that don't quite go anywhere else.

dracarys

:fire: UMCCR workflow tidying :dragon_face:

driver-analysis

Workflow for driver events identification across cohorts of tumours

ega-submit

EGA cryptor + Aspera CLI submitter

g3po

🤖 Assorted utility CLI to work with Gen3

gen3-doc

UMCCR Gen3 Documentation

gene_panels

genes

:jeans: Gene collections used at UMCCR

ghif-qc

Identify a set of key QC metrics and spell out their detailed definitions as part of the GHIF WGS QC workgroup

google_lims

Parsing Google-LIMS for dashboards and bcbio config files

gpgr

:books: Genomics Platform Group Reporter

gridss-purple-linx

Standalone GRIDSS/PURPLE/LINX pipeline

gridss-purple-linx-nf

Nextflow pipeline and AWS stack for the GRIDSS/PURPLE/LINX toolkit

hm-explore

hmftools-nf

A comprehensive cancer WGS/WTS analysis and reporting pipeline from the Hartwig Medical Foundation

holmes

BAM fingerprint stack

hpc_utils

🖥️ Cluster utils and paths to the reference data in UMCCR servers

htsget-rs

A server implementation of the htsget protocol for bioinformatics in Rust

htsget-rs-cli

Rust htsget client

htsnexus

Experimental web service for accessing and slicing bam/cram/vcf.bgzip/bcf data

ica-ica-lazy

A suite of scripts for getting your local workstation set up with ICA

icav2-cli-plugins

A set of additional subcommands for icav2

ideoviz

Trying out our sample data with IdeoViz

igv

Interactive Genome Viewer with built-in Amazon Web Services support

igv.js

Embeddable genomic visualization component based on the Integrative Genomics Viewer - UMCCR fork