Methylkit analysis of steven’s alignments
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Thur. Aug. 15, 2019 Pt. Whitney Juv. Exp. plans, FFAR call
Equipment brought to hatchery:
HgCl2 (stored in safety cabinet
100um silos (15 total)
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Aug. 13-14, 2019, Salmon-Sea lice analysis and geoduck project
Sea lice and Salmon data
Start full alignments using pre-determined settings on Mox
Created scripts:
Salmon: 20190814_BmrkSsalar.sh
Sea lice: 20190814_BmrkCalig.sh
Started running 20190814_BmrkSsalar.sh @ 11:40am
takes about 4.5-5 hours/sample so alignments should be done in ~4-6 days including rest of analysis (we’ll see).
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Tues. Aug. 13, 2019 Pt. Whitney Juv. Geoduck resistance to stress plans
Here is a summary of new ideas for the ‘juvenile resistance to stress’ experiment following a discussion with Steven and Brent on Wed. Aug. 7:
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Mon. Aug. 12, 2019
bedtools makewindows -b v074/Pgenerosa_v074.mRNA.bed -n 10
did this:
https://github.com/s-andrews/BamQC/blob/master/README.md on ostrich
had to install ant (followed these directions)
BamQC results
file:///Volumes/web/metacarcinus/Pgenerosa/analyses/20190806_v074/multisampleBamQcReport.html
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