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Updating header in 1_RenameCDS.py

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Auden Cote-L'Heureux 2024-01-26 11:26:00 -05:00 committed by GitHub
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PTL1/Genomes/Scripts/1_RenameCDS.py
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@ -1,9 +1,12 @@
#!/usr/bin/env python3.5 # Last updated Sept 2017
# Author: Xyrus Maurer-Alcala
##__Updated__: 19_09_2017
##__Author__: Xyrus Maurer-Alcala; maurerax@gmail.com
##__Usage__: python 1g_RenameCDS.py --help
# This script takes in CDS as formatted by GenBank for genome assemblies,
# removes input CDS that are shorter than 30bp, renames CDSs for ease of processing
# in later steps of the pipeline, and creates the general output folder structure.
# Input CDS should be named as Op_me_Hsap_GenBankCDS.fasta, with Op_me_Hsap replaced with
# a unique 10-digit sample identifier for each input file. This script is intended to be
# run as part of the PhyloToL 6 Part 1 pipeline using the script wrapper.py.
from Bio import SeqIO from Bio import SeqIO
from Bio.SeqUtils import GC from Bio.SeqUtils import GC