icgc-argo-workflows/dnaalnqcis a reproducible bioinformatics workflow that can be used to obtain QC metrics from tumour/normal paired, tumour-only, normal-only WGS/WXS/Targeted-Seq aligned reads. It has been created to support quality control efforts within ICGC-ARGO project. The aggregated QC ...
icgc-argo-workflows/prealnqcis a reproducible bioinformatics best-practice analysis pipeline of ICGC ARGO Pre Alignment QC Workflow for DNA/RNA Sequencing Reads. The pipeline is built usingNextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It use...
https://github.com/icgc-argo/variant-calling-tools/variant-filter https://github.com/icgc-argo/nextflow-data-processing-utility-tools Each Nextflow module (including associated container image which is registered in Quay.io) is strictly version controlled and released independently. To ensure reproducib...
Development of the Data Access Control API. Contribute to icgc-argo/dac-api development by creating an account on GitHub.
Repository files navigation README MIT license rna-editing This repository collects the tool packages used for RNA Editing analysis in the context of the ICGC ARGO project.About RNA editing analysis omics.bjcancer.org/ Resources Readme License MIT license Activity Custom properties Stars 2 ...
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Actions: icgc-argo/argo-docsActions All workflows Dependabot Updates Management Caches Attestations All workflows Showing runs from all workflows 3 workflow runs Event Status Branch Actor npm_and_yarn in /website for markdown-to-jsx - Update #901468017 ...
Draft copy in: https://github.com/icgc-argo-workflows/dnaaln Testing commands: Full pipeline work through if sequencing files and payload are local nextflow run main.nf -profile debug_qa,docker --api_token NNNNNNNN-NNNN-NNNN-NNNN-NNNNNNN...
Development of the Data Access Control API. Contribute to icgc-argo/dac-api development by creating an account on GitHub.
First iteration of the workflow: https://github.com/icgc-argo-workflows/dnaalnqc Presented on May 26th QC working group meeting and got some feedback, will adjust the workflow to: accept both normal/tumour paired and tumour-only alignments as inputs report sample level contamination edsu7 comme...