owl/Athaliana/20180709_oly_methylseq/

This directory contains the output of the Bismark pipeline run on all of our Olympia oyster BSseq data sets.

Data has been deduplicated, sorted, and indexed, so it's ready for downstream analysis in MethylKit (R package) and IGV.

Data set info is here:

- https://github.com/RobertsLab/project-olympia.oyster-genomic/wiki

Notebook entry:

- http://onsnetwork.org/kubu4/2018/08/16/dna-methylation-analysis-bismark-pipeline-on-all-olympia-oyster-bsseq-datasets/

- Jupyter Notebook:

- https://github.com/RobertsLab/code/blob/master/notebooks/sam/20180709_emu_oly_methylation_mapping.ipynb