28 February 2025
Friday
27 February 2025
Thursday
26 February 2025
Wednesday
25 February 2025
Tuesday
24 February 2025
Monday
21 February 2025
Friday
20 February 2025
Thursday
1.5 hr – SWED102
1.5 hr – troubleshooting launching an Rstudio server through Klone – got it to work! And was able to run correlation analyses, whcih is the whole reason I needed to use Klone. Yay!
1 hr – weekly lab meeting. discussed Zach’s lncRNA paper and Klone
2 hr – FSH513 lity review on coral historical baselines (“prehuman” and pre-1980, when first mass bleaching event was recorded). Also, some reading on the concept of “shifting baselines,” which will likely be relevant to final FISH513 manuscript
0.5 hr – QSCI381 weekly meeting
2 hr – FSH513 class
Daily total: 8.5 hr
19 February 2025
Wednesday
1.5 hr – SWED102 HW and weekly Quiz
1.5 hr – SWED102 class
1.5 hr – FSH513 finished digitizing data from GCRMN 2020 hard coral cover figure, read into R and plotted
2 hrs – degree stuff. Looked over my Plan of Study again and realized that the Degree Audit tool is inaccurate – I actually need ~12 additional credits of graded coursework, not the ~5 I thought I had left. I decided on FISH546 (Bioinformatics), CSE416 (Machine Learning), and FISH 544 (Conservation Genetics) to meet the credit requirement and sent my M.S. Plan of Study to committee members for signing.
1 hr – Read lncRNA paper for Lab Meeting tomorrow (Deng et al., 2022, doi: 10.1007/s11160-022-09734-7, selected by Zach)
2 hrs – QSCI381 Office Hours
0.5 hr – FSH513 wrote up methods thus far. Will need to do more lit review before writing discussion, focusing on potential gaps in the GCRMN report (e.g. how much had reefs already declined by 1980, when this dataset starts?)
1 hr – E5, read through some of my sources to double check that miRanda isn’t making any mammal-specific sequence feature assumptions (other than the seed region) – don’t think it is. Read through current state of deep dive expression manuscript + comments/to-do.
1.5 hr – trying to launch an RStudio instance through Klone again, still getting same issue as in January. Details in the github issue and my notebook post
Daily total: 12.5 hrs
18 February 2025
Tuesday
1 hr – SWED102 class
2.5 hr – QSCI381 lab
1 hr – weekly lab meeting w Steven
0.5 hr – QSCI381 Ed discussion/Canvas Inbox
7.5 hr – QSCI381 Assignment 5 grading
Daily total: 12.5 hrs
17 February 2025
Monday
President’s day
Took most of day off for federal holiday
- 2 hr – QSCI381 review weekly content and make lab video for today’s section
Daily total: 2 hrs
14 February 2025
Friday
2 hr – E5 work, adding coexpression consideration to comparison of target prediction parameters, meeting prep
1.5 hr – E5 meeting – meeting notes here
1.5 hr – SWED102 class
2 hr – QSCI381 weekly office hours
2 hr – FSH513 data digitization
0.5 hr – QSCI381 answering canvas inbox and ed discussion messages
1 hr – misc (emails, lab notebook updates, etc.)
Daily total: 10.5 hr
Weekly summary:
Monday | Tuesday | Wednesday | Thursday | Friday | TOTALS | |
---|---|---|---|---|---|---|
Classes | 1 | 1 | 1 | 4.5 | 3.5 | 11 |
TAing | 8 | 4.5 | 4 | 3 | 2.5 | 22 |
Thesis work | 0 | 2.5 | 0 | 2.5 | 3.5 | 8.5 |
Misc. | 0 | 0 | 0 | 0 | 1 | 1 |
TOTALS | 9 | 8 | 5 | 10 | 10.5 | 42.5 |
Similar to last week, which I’m actually happy with since I was sick for one of the days this week! My TA hours were higher though, which is not the direction I want them to be moving. Some of this time was setup for the next few weeks, so hopefully that helps.
13 February 2025
Thursday
1 hr – E5 ran comparison of miRanda target prediction using different inputs and filtering
1.5 hr – SWED102 class
1 hr – FSH513 data consolidation and digitization
0.5 hr – QSCI381 weekly meeting
1.5 hr – Lab picture and Lab meeting
2 hr – FSH513 class
2.5 hr – QSCI381 Misc. Canvas inbox messages, Ed discussion messaging w Tsering, creating updated docs for Assignment/Lab 7 and 8 and updating all of the Assignment and Lab Canvas pages. Looked through Assignment 9 stuff and messaged Steven about discrepancies. Added gradescope assignments
Daily total: 10 hrs
12 February 2025
Wednesday
Gave myself ✨food poisoning✨, so just focused on trying to finish grading today. Moved normal office hours to Friday.
1 hr – SWED102 class
4 hr – QSCI381 grading
Daily total: 5 hrs
11 February 2025
Tuesday
1 hr – SWED102 class
2 hr – E5 work, doing some reading on expected miRNA behavior (binding and location of targets) in cnidarians
2.5 hr – QSCI381 Lab
0.5 hr – weekly meeting w/ Steven
2 hr – QSCI381 grading
Daily total: 8 hrs
10 February 2025
Monday
0.5 hr – QSCI381 catch up on Ed discussion and Canvas Inbox stuff from the weekend
1 hr - SWED102 class
3 hr – QSCI381 fix this week’s assignment and lab pages (need to ask Tsering if she is still able to help w this), skim this week’s course content, skim this week’s Assignment 5 and Lab 5 and work through any problems I’m not sure about, additional misc prep for Lab
2.5 hr – QSCI381 Lab
2 hr – QSCI381 grading
daily total: 9 hr
07 February 2025
Friday
2 hr – E5 work
1.5 hr – SWED102 class
1 hr – catch up on E5 github issues and on lab RSS feed issue. Think we figured it out, so my daily updates and notebook posts should hopefully show up in the notebook-entries
slack channel!
1 hr – FSH513 meeting w Ray
0.5 hr – SWED102 quiz and second writing assignment
0.5 hr – QSCI381 Ed discussion responses
3 hr – E5 work. Updated gene expression summaries, lncRNA-miRNA binding (miRanda still running), plus lit review into cnidarian/plant miRNA binding and into siRNA binding (in prep for running siRNA target prediction)
Daily total: 9.5 hr
Weekly overview:
Monday | Tuesday | Wednesday | Thursday | Friday | TOTALS | |
---|---|---|---|---|---|---|
Classes | 2.5 | 1 | 3 | 4 | 3 | 13.5 |
TAing | 5.5 | 9.5 | 2 | 1 | 0.5 | 18.5 |
Thesis work | 0 | 1 | 2 | 0 | 6 | 9 |
Misc. | 0 | 1 | 0 | 3 | 0 | 4 |
TOTALS | 8 | 12.5 | 7 | 8 | 9.5 | 45 |
This week I hit the hours/week goal nicely, but my allocation is a bit skewed. I’m spending more time on TAing and less time on thesis work than I’d like. While I’m still within the 20hr/wk slot allowable for my TA position, I’d like to bring the hours down to 15hr/wk to allow more time for my own research.
06 February 2025
Thursday
1 hr – SWED102 class
1 hr – FSH513 downloaded SQLite db and query file for HeatCRD database and figuring out how to access stuff in an SQLite DB
1 hr – QSCI381 weekly meeting
1 hr – Lab meeting
2 hr – FSH513 class
0.5 hr – emails/github issues checks, Canvas Inbox, Ed Discussion, etc.
1.5 hr – Updating personal info, presentations on Lab Website, adding to some of the github issues we created during lab meeting today related to Lab Website updates, additions
Daily total: 8 hr
05 February 2025
Wednesday
1 hr – SWED 102
2 hr – QSCI381 office hours
2 hr – FSH513 summarizing CRGMN 2020 primary findings & adding to slides, looking inot data/methods of HeatCRD data
1 hr – misc. catch up on emails, lab/E5 github issues, lab/E5 slack messages
0.5 hr – heard from Andrea that I’m likely to receive SIFP (though not yet official)! Read through all of my submitted application materials to re-familiarze myself with the work I proposed.
0.5 hr – new goals for February
Daily total: 7 hrs
04 February 2025
Tuesday
1 hr – SWED102 class
2.5 hr – QSCI381 lab
1 hr – weekly meeting w Steven (plus prep for meeting). Discussed plan/work timeline for EPIMAR
1 hr – miscellaneous (emails, skimming some papers sent in lab Slack, Ed discussion, Canvas Inbox, etc.)
7 hr – QSCI381 grading
Daily total: 12.5 hrs
03 February 2025
Monday
1.5 hr – SWED102 HW
1 hr – SWED102 class
3 hr – QSCI381 Lab prep (read through weekly material, skim Lab and Assignment, prep lab material) and misc. (Canvas inbox, Ed Discussion, etc.)
2.5 hr – QSCI381 Lab
Daily total: 8 hrs