converting Accepted_hits.bam to txt or bed
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9.2 years ago
zizigolu ★ 4.3k

Sorry friends,

How can I convert the accepted_hits.bam produced by tophat to txt and bed?

Thank you
bam bed • 4.2k views
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9.2 years ago

http://bedtools.readthedocs.org/en/latest/content/tools/bamtobed.html
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Sorry the accepted_hits.bam produced by tophat is the same normal bam which can be converted by bedtools to bed file?

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Honestly speaking I have never tried it but I see no reason why it won't work with bedtools.

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thank you Ashutos

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9.2 years ago

Another option is BEDOPS bam2bed:

http://bedops.readthedocs.org/en/latest/content/reference/file-management/conversion/bam2bed.html
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