Dear all,
With this command:
samtools idxstats aln.sorted.bam
You get a TAB delimited output where each line consists of ref.seq. name, ref.seq. length, number of mapped reads and number of unmapped reads. But the last line of this output is smth like this:
* 0 0 29000000
What does it mean? Does it mean that number of mapped reads in total (to any ref.seq.) is 29000000?
Thanks in advance,
Irina
With this command:
samtools idxstats aln.sorted.bam
You get a TAB delimited output where each line consists of ref.seq. name, ref.seq. length, number of mapped reads and number of unmapped reads. But the last line of this output is smth like this:
* 0 0 29000000
What does it mean? Does it mean that number of mapped reads in total (to any ref.seq.) is 29000000?
Thanks in advance,
Irina
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