ERGA Assembly Galaxy Long Reads & Hi-C Pipelines (Hifiasm-HiC + Purge_Dups + YaHS)

Collection of de-novo genome assembly workflows written for implementation in Galaxy

Input data should be PacBio HiFi or ONT long reads and Illumina 3-dimensional Chromatin Confirmation Capture (HiC) reads

Executing all workflows will output two scaffolded haplotype assemblies and the complete QC analyses

Please run the workflows in order: WF0 (there are for long reads and for Illumina HiC), WF1, WF2, WF3 (optional), WF4