Don't use wildcard imports like from metaphase.XX import *. This makes the code difficult to read and prone to errors.
Instead, either use import metaphase.XX as YYm and then use YY.funcionZ(), or import specific functions as from metaphase.XX impot functionZ.
This in particular important for the parameters in params.py - I suggest to either use module import and then do params.PARAM_NAME or have a single dictionary with all parameters that you can import.
In addition, parameters should be given informative names (e.g. strong_cluster_min_reads, but not I or R.
Don't use wildcard imports like
from metaphase.XX import *. This makes the code difficult to read and prone to errors.Instead, either use
import metaphase.XX as YYm and then useYY.funcionZ(), or import specific functions asfrom metaphase.XX impot functionZ.This in particular important for the parameters in
params.py- I suggest to either use module import and then doparams.PARAM_NAMEor have a single dictionary with all parameters that you can import.In addition, parameters should be given informative names (e.g.
strong_cluster_min_reads, but notIorR.