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:
- Run TrimGalore! with
- Run FastQC and MultiQC on trimmed files.
- Copy all data to owl (see Results below for link).
- Confirm data integrity via MD5 checksums.
TrimGalore! output folder:
FastQC output folder:
MultiQC output folder:
MultiQC report (HTML):
from Sam’s Notebook https://ift.tt/2IYkxUd