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  • cmccabe
    Senior Member
    • Jul 2012
    • 355

    pybedtools vs bedtools

    I had trouble installing bedtools on windows using cygwin (or at least I did a year ago). I am reading about pybedtools and just want to make sure I understand it:

    Using BedTools 2.20
    Code:
     mergeBed - i example.bed > merged_example.bed
    Using pybedtools:
    Code:
     pybedtools.merge('example.bed') > merged_example.bed
    Using BedTools 2.20:
    Code:
     intersectBed -a merged_example.bed -b IDT.bed > intersected_example.bed
    Using pybedtools:
    Code:
     pybedtools.intersect(intersectBed -a merged_example.bed -b IDT.bed) > intersected_example.bed
    Thank you

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  • GATTACAT
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