I need to create a program called extractGenes.py
The command line parameters need to take 2 OR 3 parameters
1. -s: this is an optional parameter, or switch, indicating that the user wwants the spliced gene sequence(introns removed). The user does not have to provide this (meaning he wants the entire gene sequence), but it he does provide it then it must be the first parameter
2. input file (with the genes)
3. output file (where the program will create to store the fasta file
the file contains line like this:
NM_001003443 chr11 + 5925152 592608098 2 5925152,5925652, 5925404,5926898,
However, I am not sure how to include the -s, optional parameter, into the starting function.
Any help would be amazing!!