/elixir-cloudportal-workflow

ELIXIR QC QCloud workflow

Primary LanguagePython

Note The EBI Cloud Portal has been retired and its code base is no longer updated. This includes the collaboration with the PRIDE team.

ELIXIR cloudportal workflow

aka Elixir QC EBI Qcloud TSI Cloud Portal

Docker Repository on Quay Nextflow version Gitter chat

Using nextflow

The workflow uses nextflow and makes ample use of the container feature. Example use:

../nextflow/nextflow run pxd2qc.nf -c ../nextflow/mynextflow.config -profile local --input PXD011124

based on the generic server Portal app

Input from PRIDE

Workflow inputs are PRIDE submission accessions (PXD). For starters, we will restrict ourselves to Q exactive thermo raw files.