Fasta is deprecated and code is unclean

kadiliissaar / DeePhase

DeePhase predictor of homotypic liquid-liquid phase separation of proteins & the code associated with the paper "Learning the molecular grammar of protein condensates from sequence determinants and embeddings" (Saar et al., 2021, PNAS)

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Fasta is deprecated and code is unclean #1

Open 84chain opened 2 years ago

84chain commented 2 years ago

Variables are all over the place and some functions are guaranteed to error when called. The code is almost unreadable at times, which makes it almost impossible to use. I have added a requirements.txt for you, please type in the modules that have to be installed (imports that aren't built in) for easy installation for users.

Thanks!

EDIT: Please use classes, for the sake of accessbility, readability, and functionality.

84chain commented 2 years ago

.gitignore: https://files.catbox.moe/cqewu1.gitignore requirements.txt: https://files.catbox.moe/dayp6z.txt