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Copy file name to clipboardExpand all lines: prepDE.py
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frommathimportceil
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fromoptparseimportOptionParser
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fromoperatorimportitemgetter
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#note that the gtf files in the sample folders have same # of lines, just different order(?)
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MIN_PYTHON= (2, 7)
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ifsys.version_info<MIN_PYTHON:
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sys.exit("Python %s.%s or later is required.\n"%MIN_PYTHON)
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parser=OptionParser(description='Generates two CSV files containing the count matrices for genes and transcripts, using the coverage values found in the output of `stringtie -e`')
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parser.add_option('-i', '--input', '--in', default='ballgown', help="the parent directory of the sample sub-directories or a textfile listing the paths to GTF files [default: %default]")
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