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Updating header in 1a_TranscriptLengthFilter.py

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Auden Cote-L'Heureux 2024-01-16 11:53:01 -05:00 committed by GitHub
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PTL1/Transcriptomes/Scripts/1a_TranscriptLengthFilter.py
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#!/usr/bin/env python3.6 # Last updated 01/04/2023
##__Updated__: 01_04_2023 by Auden Cote-L'Heureux # This script is intended to remove transcripts below or above a given
##__Usage__: python 1_ContigFiltStats.py # size range from a transcriptome assembly.
##__Options__: python 1_ContigFiltStats.py --help
######################################################################################## # Prior to running this script, ensure that you have assembled your
## This script is intended to remove transcripts below or above a given # transcriptome and renamed the assembled transcripts in the format of
## size range from a transcriptome assembly. # rnaSpades. Each file name should be of the format
## # Op_me_Hsap_assembledTranscripts.fasta, replacing "Op_me_Hsap" with the
## Prior to running this script, ensure the following: # 10-digit taxon identifier of your choice. See example data on the GitHub
## 1. You have assembled your transcriptome and COPIED the 'assembly' file # for reference.
## (contigs.fasta, or scaffolds.fasta) to the PostAssembly Folder
##
## COMMAND Example Below
##
## E-mail Xyrus (author) for help if needed: maurerax@gmail.com
##
## Next Script(s) to Run:
## AutoBactVsEuk.py (removes SSU then Bact) or 2a_removeSSU.py then 2b_removeBact.py
##
########################################################################################
import argparse, os, sys import argparse, os, sys