Projects:

Salmon and sea lice

inventory, order supplies, and plan DNA extractions

Geoduck broodstock epigenomics

post analysis
check coverage

Geoduck broodstock molecular study to complement histology and other data

calculate respirometry stuff
calculate water chem stuff
review SamG.’s samples
consider hatchery samples

Oyster Proteomics

write notes from meeting with Steven and meeting with grace

Address what ‘normal’ development is:

make GIF network or Shiny app
networks need to be simpler (bubble plot)
** just total spectra under term vs considering number of proteins…am I already doing this?

Try changing heatmap - maybe include day 0 in the heatmap of selected proteins. Describe that day 0 was not included in stats to identify differences between temps because it was common. But it is included in the heatmap for a baseline proteome reference - order by days so temps are next to each other

Compare data to development papers
- Papers:
- Share with grace
Describe GO slims enriched relative to all the proteins in the genome
- get GO slims for uniprot mappings that have <= 10^-10 eval and see if GO slims of dev. proteomes are different
Network figures
- post issue to decide if one is better than the other

Pteropods pH x DO

update water chem; calculate pCO2 and aragonite sat.
plot discrete and logger data imposed
update survival analysis with Paul’s stat test8