Weekly to-do list (28th, Feb, 2022)

Below is the list of to-dos from 28th, Feb, 2022 to 6th, Mar, 2022.

[x] Fork and clone cogent3 and c3dev repositories to local machine.
[x] Install Windows Subsystem for Linux (WSL2) and set up Python virtualenv for development.
[x] Investigate the pathlib library and check how it can be used.
[x] Try some code with cogent3 (especially about sequence alignment), and think of possible ways to measure the performance of sequence alignment algorithms.
[x] Search for (third-party) utilities for profiling the memory usage during algorithm execution. (Runtime of the algorithm is not the key point as Python itself is slow.)
[x] Re-read the partial order graph and de Bruijn graph (or possibly A-Bruijn graph) and figure out the similarities and differences betwen them. What are their pros and cons? Make some notes.
[x] Try different dynamic programming algorithms for sequence alignment (e.g. Needleman-Wunsch) and see where they fit.

xingjianleng / DBGA