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UMCCR (umccr)

UMCCR

umccr

Geek Repo

University of Melbourne Centre for Cancer Research

Location:Melbourne, Australia

Home Page:https://umccr.github.io/

Twitter:@umccr

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UMCCR's repositories

htsget-rs

A server implementation of the htsget protocol for bioinformatics in Rust

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infrastructure

Infrastructure as Code at UMCCR

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MAF-summary

Summary of a single or multiple MAF files.

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cwl-ica

A collection of cwl-ica workflows along with a user guide for the commands to use and contributions guide

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gpgr

:books: Genomics Platform Group Reporter

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driver-analysis

Workflow for driver events identification across cohorts of tumours

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RNAsum

Pipeline for generating RNAseq-based cancer patient reports

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illumination

:high_brightness: Interacting with Illumina Connected Analytics (ICA) API

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v2-samplesheet-maker

Generate V2 SampleSheets from JSON Inputs

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wrapica

A suite of secondary / tertiary functions for running ICA API calls

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cwl-ica-cli

The CLI used for creating/syncing CWL workflows from GitHub to ICAv1

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data-portal-apis

UMCCR Data Portal API Backend in cloud native serverless

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data-portal-client

UMCCR Data Portal Frontend

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fake-passport-ecosystem

A fake GA4GH passport ecosystem that can be deployed to AWS, or run locally

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hmftools

Various algorithms for analysing genomics data

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hmftools-nf

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

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orcabus

 🐋 UMCCR Pipeline & Workflow Orchestration

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dracarys

:dragon_face: UMCCR workflow tidying :fire:

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agha-data-validation-pipeline

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cpsr

Cancer Predisposition Sequencing Reporter (CPSR)

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cttso-ica-to-pieriandx

Transfers data from GDS / creates PierianDx case / run and informatics job for each sample.

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cwl-novice-tutorial

CWL Novice Tutorial

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data-portal-status-page

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ega-submit

EGA cryptor + Aspera CLI submitter

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fake-passport-client-example

A locally runnable example of a GA4GH passport/visa client

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nextflow-stack

AWS stack to run Nextflow pipelines on Batch using shared resources

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pcgr

Personal Cancer Genome Reporter (PCGR)

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rportal

:crystal_ball: R functionality for UMCCR Data Portal

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samplesheet-check-backend

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samplesheet-check-frontend

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