rlancaster96
commented
1 year ago Thank you Evelyn! This will be done with a function called at the beginning before I start any file reading. I like your argparse idea, I've never tried doing that but I think it could work well in this case. I realized my pseudocode was a bit sparse and I forgot to explicitly include my functions in it.
Your dictionary is generally clear. I understand what the key and values are. Are you planning on doing this in a function or calling it from the function below? For the opening the files, I think it would be a good idea to also use argparse. You could have this as a function above and call them as variables. Or are you planning on doing them directly with the “with open?” In that case, I recommend importing gzip—I think you’re already on that track as well seeing your part 1 progress so far. The quality filtering is easy to follow. The reverse complement can be its own function too.