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Update Assess_transcriptomes_v2.0.py

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Godwin Ani 2024-01-15 14:54:55 -05:00 committed by GitHub
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Utilities/For_Assemblies/Assess_transcriptomes_v2.0.py
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#Inputs: Folder called Renamed_assembled_files of previously renamed files (if this is the case, put -r or --renamed in the command line) #Inputs: Folder called Renamed_assembled_files of previously renamed files (if this is the case, put -r or --renamed in the command line)
tsv file of LKH number and new names formatted like this: 10_digit_code\tdescriptor_of_taxon called new_names.tsv tsv file of LKH number and new names formatted like this: 10_digit_code\tdescriptor_of_taxon called new_names.tsv
#Outputs: A spreadsheet containing the length, GC, and coverage of each transcript. #Outputs: A spreadsheet containing the length, GC, and coverage of each transcript.
#Example: python assess_transcriptomes.py -input <pathway to directory of spades output> #Example: python Assess_transcriptomes_v2.0.py -input <pathway to directory of spades output>
''' '''
import os import os
import sys import sys