A workflow to show how material from DaSch can be processed in Galaxy. The example used is a optical character recognition of a German newspaper from DaSch which will be made machine-readable, cleaned, stripped of punctuation and visualised in a Wordcloud.

Purge contigs marked as duplicates by purge_dups (could be haplotypic duplication or overlap duplication). The contigs are purged from the first assembly (hap1, pri...), added to the second assembly (hp2, alt... ), then the 2nd assembly is purged as well. If you think only one of the assemblies needs purging, use the VGP6b workflow. This workflow is the 6th workflow of the VGP pipeline. It is meant to be run after one of the contigging steps (Workflow 3, 4, or 5).

MyWorkflow

Description of the MyWorkflow repository

Galaxy workflow

sort lines and change text to upper case. indeed

Visualisation with Circos