Pinned Repositories
cwl-ica
A collection of cwl-ica workflows along with a user guide for the commands to use and contributions guide
data-portal-apis
UMCCR Data Portal API Backend in cloud native serverless
htsget-rs
A server implementation of the htsget protocol for bioinformatics in Rust
infrastructure
Infrastructure as Code at UMCCR
MAF-summary
Summary of a single or multiple MAF files.
neoantigens
🏺 Exploring novel tumor epitope identification
orcabus
🐋 UMCCR Pipeline & Workflow Orchestration
RNAsum
Pipeline for generating RNAseq-based cancer patient reports
umccrise
:snake: DRAGEN Tumor/Normal workflow post-processing
vcf_stuff
📊Evaluating, filtering, comparing, and visualising VCF
UMCCR's Repositories
umccr/htsget-rs
A server implementation of the htsget protocol for bioinformatics in Rust
umccr/infrastructure
Infrastructure as Code at UMCCR
umccr/MAF-summary
Summary of a single or multiple MAF files.
umccr/cwl-ica
A collection of cwl-ica workflows along with a user guide for the commands to use and contributions guide
umccr/gpgr
:books: Genomics Platform Group Reporter
umccr/RNAsum
Pipeline for generating RNAseq-based cancer patient reports
umccr/libica
:snake: Python SDK for Illumina Connected Analytics (ICA) :dragon:
umccr/orcabus
🐋 UMCCR Pipeline & Workflow Orchestration
umccr/docker-who
A miscellaneous set of UMCCR dockerfiles that don't quite go anywhere else.
umccr/holmes
BAM fingerprint stack
umccr/illumination
:high_brightness: Interacting with Illumina Connected Analytics (ICA) API
umccr/icav2-cli-plugins
A set of additional subcommands for icav2
umccr/wrapica
A suite of secondary / tertiary functions for running ICA API calls
umccr/cwl-ica-cli
The CLI used for creating/syncing CWL workflows from GitHub to ICAv1
umccr/data-portal-apis
UMCCR Data Portal API Backend in cloud native serverless
umccr/data-portal-client
UMCCR Data Portal Frontend
umccr/dracarys
:dragon_face: DRAGEN workflow tidying :fire:
umccr/crypt4gh-rust
Rust implementation for the Crypt4GH encryption format
umccr/cwl-novice-tutorial
CWL Novice Tutorial
umccr/data-portal-status-page
umccr/gene_panels
umccr/libumccr
🐍 UMCCR Reusable Python modules
umccr/nextflow-stack
AWS stack to run Nextflow pipelines on Batch using shared resources
umccr/orca-ui
umccr/rportal
:crystal_ball: R functionality for UMCCR Data Portal
umccr/samplesheet-check-backend
umccr/samplesheet-check-frontend
umccr/sk-explore
umccr/steps-s3-copy
A Steps orchestration for copying large volumes of S3 objects
umccr/variant-tally
Computes tallies of occurrence of variation across laboratories