This repo has my code, notes and visualizations from the courses in the Coursera Bioinformatics specialization.

[x] Bioinformatics I - completed

[x] Bioinformatics II - in progress

Some of these problems are also on Rosalind.

Setup

$ uv sync

Run

Use the Justfile to run if you have just installed:

just part1_week1 #run code & tests for each week/part
just web #run vis webserver

or use bash:

$ cd src
$ uv run python wsgi.py #run vis webserver
$ uv run python -m part1.week1 #run code & tests for each week/part
$ uv run python lib.py #run tests

Todos

• Use text dumps or something to version SQLITE DB instead of committing the binary https://news.ycombinator.com/item?id=38110286 https://garrit.xyz/posts/2023-11-01-tracking-sqlite-database-changes-in-git https://datasette.io/tools/sqlite-diffable