Mercurial > repos > jay > pdaug_peptide_sequence_analysis

annotate PDAUG_Merge_Dataframes/PDAUG_Merge_Dataframes.py @ 9:90e3b1968ae6 draft default tip

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"planemo upload for repository https://github.com/jaidevjoshi83/pdaug commit d396d7ff89705cc0dd626ed32c45a9f4029b1b05"
author jay
date Wed, 12 Jan 2022 19:36:54 +0000
parents b73ba641e514
children
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1 import glob
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2 import pandas as pd
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3 import sys
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6 def MergeData(infiles, add_class_label, class_label, OutPut):
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8 data_frame = pd.DataFrame()
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10 if add_class_label == 'True' or add_class_label == 'true':
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11 for i, file in enumerate(infiles.split(',')):
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12 df1 = pd.read_csv(file,sep='\t')
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13 df2 = pd.DataFrame(df1.shape[0]*[i], columns=[class_label])
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14 df3 = pd.concat([df1,df2], axis=1)
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15 data_frame = pd.concat([data_frame,df3])
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16 final_DF = data_frame.fillna(0)
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18 else:
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20 for file in infiles.split(','):
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21 df1 = pd.read_csv(file,sep='\t')
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22 data_frame = pd.concat([data_frame,df1])
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23 final_DF = data_frame.fillna(0)
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25 final_DF.to_csv(OutPut, sep="\t", index=False)
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28 if __name__=="__main__":
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30 import argparse
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31 parser = argparse.ArgumentParser()
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32 parser.add_argument("-I", "--infiles", required=True, default=None, help=".tsv")
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33 parser.add_argument("-L", "--add_class_label", required=False, default=False, help="Path to target tsv file")
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34 parser.add_argument("-C", "--class_label", required=False, default='class_label', help="Path to target tsv file")
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35 parser.add_argument("-O", "--OutPut", required=False, default='Out.tsv', help="Path to target tsv file")
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37 args = parser.parse_args()
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39 MergeData(args.infiles, args.add_class_label, args.class_label, args.OutPut)