The ppmSeq Preprocess pipeline is designed to process untrimmed ppmSeq sequencing data through a complete preprocessing workflow including adapter trimming, alignment to reference genome, sorting, duplicate marking, and QC report generation. This analysis is generally done on the UG sequencer, this pipeline is intended for cases where it did not happen or was improperly configured. For more details on ppmSeq, see ppmSeq™ | Ultra-Accurate SNV Detection for Rare Variant Applications and https://www.biorxiv.org/cont
This is a companion discussion topic for the original entry at github.com/bicklab/healthomics-workflows/ppmSeqPreprocess