preprocessing and assembly workflows for Illumina MiSeq data


The IlluminaPreprocessAssembly.wdl workflow was developed for the preprocessing and assembly of Illumina MiSeq sequencing of SARS-CoV-2 to be run on the GCP Terra platform. It takes paired-end fastq files as input.

The columns for the input data table in Terra should be arranged as:

  1. entity:sample_id (column of sample names/ids). If there is more than one data tabl

This is a companion discussion topic for the original entry at