Cassidy Development Diary - TheEvergreenStateCollege/bioinformatics GitHub Wiki

Cassidy's Development Diary

Week 2

  • Hours I'd like to spend: 9
  • What I'd like to do: Research DNA and CUDA with RUST, and start the initial graphing implementation
  • How many hours I spent last week: 6
  • How my learning went: I tried reading the paper linked in the README, got confused, and tried watching so videos. Still confused.

I watched a few videos on Eulerian paths, and started implementing an adjacency matrix based graph. I also talked with Gavin quite a bit about the best way forward, and whether we should be doing read alignment instead of sequencing.

Week 3

Edit Distance

I managed to create an edit distance function: https://github.com/TheEvergreenStateCollege/smarty-plants/pull/16

  • After hours of tearing my hair out I finally got edit_distance to pass all the tests.
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