TODO list

[bernalhd]

Tasks

• [ ] Develop backend.
• [ ] Develop frontend.

Additional Notes

[irazoquimatias]

• [ ] Make inputs as parameters (see "scripts/parse_fastq.py" as example of parse_options)
• [x] When a synonymous mutation is found, the output should show the nucleotide that's different, not the amino acid
• [ ] Add sequence pairwise alignment (Bio.Align.PairwiseAligner if it's not very slow). Script should take each sequence from a multifasta, align it against the reference and then look for mutations in that alignment.
• [ ] Make old scripts more "pythonish" (this one's on me, styles should be the same in all scripts).
• [ ] Add mutations script to "make_consensus".
• [ ] Add script to check every file format (not the extension) at start of "make_consensus"?
• [ ] Find cool name for tool.
• [ ] Add test data and test everything.