Thur. Sept. 12, 2019 Geoduck Genome paper

Multi Sample BamQC

Generateed multi sample BamQC report with this jupyter notebook: https://github.com/shellytrigg/Shelly_Pgenerosa/blob/master/analyses/MultiBamQC_allEPIsamples.ipynb

Geoduck genome 9/12 call:

  • Decided we will focus on day10 comparison all groups
    • next week we will compare:
      • DMGs (Hollie)
      • DMLs (Steven)
      • DMRs (Shelly)
    • we will decide if analyses are redundant and if we should just go with one and then focus on the functional analysis
  • one idea for TE analysis: compare TEs with DMRs to all TEs
    • is there a specific TE family that has DMRs?
  • a method for plotting chromosomes with colored regions: karyoplotter
  • methylation plotter (web interface Steven posted)
Written on September 12, 2019