Cutting part of a column in a bed file
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3.3 years ago

Hello everyone!! I have the whole first column of a bed file (its a genome annotation file) that I want to cut a part of the text. I have "chr12" or whatever chr+number, but I need it to be only the number of the chromosome (like "12"). How can I correct that? if it is with sed, which command should I use?

I have:

chr1    123456  123789
chr1    123790  123890
chr1    123891  124569

I need:

1   123456  123789
1   123790  123890
1   123891  124569

Thanks everyone!!

bed edit cut • 1.1k views
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ok, thanks a lot!!!!!!

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