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Old 11-08-2011, 07:54 AM   #1
rebrendi
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Default Perl script to convert BAM to BED?

Hello,
does anyone has a Perl script to convert BAM to BED format?
Thanks!
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Old 11-08-2011, 08:14 AM   #2
aaronh
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Better to use BEDTools bamTobed utility
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Old 11-08-2011, 08:20 AM   #3
Richard Finney
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See this thread for a previous discussion: http://seqanswers.com/forums/showthread.php?t=3574

Please note the command line bam2bed (using samtools and awk) suggested and the link to Heng Li's bam2bed which might provide the answers you need without actually having to crank up the perl interpreter.
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Old 03-22-2012, 10:34 PM   #4
hamiduvas
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hi any can tell me that how i convert PED file of HD SNP (777,960) data into TNT formate?
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