Workflow to take DataOne data packages (raw datasets + metadata written in Ecological Metadata Standard) as input and create a DwC occurence.csv file almost ready to put in a Dawrin core Archive using eml-annotations at the attribute level

This workflow has been created as part of Demonstrator 6 of EOSC-Life WP3 and is focused on reusing publicly available RNAi screens to gain insights into the nucleolus biology. The workflow downloads images from the Image Data Resource (IDR), performs object segmentation (of nuclei and nucleoli) and feature extraction of the images and objects identified.

Abstract CWL Automatically generated from the Galaxy workflow file: Workflow with Copernicus Essential Climate Variable - select and plot

Alignment, assembly and annotation of RNQSEQ reads using TOPHAT (without filtering out host reads).

Detects SNPs and INDELs using VARSCAN2.

Detects SNPs and INDELs.