Sam’s Notebook:TrimGalore/FastQC/MultiQC – TrimGalore! RRBS Geoduck BS-seq FASTQ data (direc tional)

0000-0002-2747-368X

Earlier this week, I ran TrimGalore!, but set the trimming, incorrectly – due to a copy/paste mistake, as --non-directional, so I re-ran with the correct settings.

Steven requested that I trim the Geoduck RRBS libraries that we have, in preparation to run them through Bismark.

These libraries were originally created by Hollie Putnam using the TruSeq DNA Methylation Kit (Illumina):

All analysis is documented in a Jupyter Notebook; see link below.

Overview of process:

  1. Run TrimGalore! with --paired and --rrbs settings.
  2. Run FastQC and MultiQC on trimmed files.
  3. Copy all data to owl (see Results below for link).
  4. Confirm data integrity via MD5 checksums.

Jupyter Notebook: