Originally posted by rnaeye
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You can take your bam file convert it to samformat using bamtools then sort it by position, then use Unix uniq command with -c option on position column.
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It seems that "samtools mpileup" can do similar counting, but it seems that tags will be counted more than once.
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the ways to count number of tags from bam file
Hi guys,
Could you please provide some ways to count the number of tags in bam file?
The view of the bam file (partial) is showed as the following pic:
I need the tag count result as the following format:
Thanks in advance.Tags: None
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