20221227
- Read Ch.10 of “The Disordered Cosmos.”
20221221
- Added transcriptome assembly info to The Handbook.
20221219
Finished notebook entries for Haws
epidiverse/snpanalysis using default config, as well as a run with a modified config file to compare runtimes. Spoiler: Default config file is significantly faster (less than half the runtime) than the modified config file I created.Lab meeting:
Matt talked about ANOVA stuff.
- Provided helpful guide he wrote up.
20221216
Science Hour
Looked through plottin Aidan’s crab data with Steven.
Steven eventually utilized Weka machine learning to mess around wih Aidan’s data, too.
20221215
Ran
epidiverse/snppipeline on Haws’ lab C.gigas Hawaii BAM files for Yaamini. using the base config file to compare runtime to the modified config file I used yesterday.- This actually completed in 12hrs, whereas the run using the modified config file took ~31hrs…
Pub-a-thon
20221214
- Got
epidiverse/snppipeline on Haws’ lab C.gigas Hawaii BAM files for Yaamini.
20221213
Mox maintenance today slowed effort to run some jobs.
Worked on getting script/config files ready to run
epidiverse/snppipeline on Haws’ lab C.gigas Hawaii BAM files for Yaamini.
20221213
Read Ch.9 of “The Disordered Cosmos” for lab meeting.
Lab meeting.
20221209
Science Hour
- Worked extensively with Olivia and Steven regarding her citrate synthase assay data and analysis.
20221208
Participated in Katie Lotterhos workshop for designing Apps from Google Sheets.
Met with Linda Rhodes to discuss future of projects.
Decision to cancel weekly meetings - will utilize GitHub issues instead.
I’m going to try to figure out why new Silva 138 database doesn’t work as well as the old 132, in her pipeline.
20221207
- Finally resolved CEABIGR mean methylation coefficient of methylation calcs (GitHub; R Markdown)! And, I figured it out in a very satisfactory, clean way! Looks great, easy to read, easy to follow, and concise.
20221202
Worked on CEABIGR mean methylation coefficient of variation stuff - getting frustrating, but getting closer!
Science Hour
CEABIGR meeting with Sam Brogan and Steven.
20221201
Worked on CEABIGR mean methylation coefficient of variation stuff - getting frustrating, but getting closer!
Helped Emma for awhile troubleshooting an issue with
TrimGalore.