On 2016-05-18 18:35, Lin, Chih-Hsu wrote:
> Thanks for your reply. I used UCSC hg19 from Illumina iGenomes. Is the value
> 8192 abnormally large for NM tag? This is a BAM from RNA-seq, so there is an
> intron of 8192 nt. How does NM compute? Does NM consider CIGAR "N" into
> account? Thanks
rom: James Bonfield
Sent: Wednesday, May 18, 2016 3:25:17 AM
To: Lin, Chih-Hsu
Cc: samtools-help@lists.sourceforge.net
Subject: Re: [Samtools-help] About BAM->CRAM->BAM
On Tue, May 17, 2016 at 09:17:20PM +, Lin, Chih-Hsu wrote:
> During the conversion, BAM->CRAM->BAM, using samto
On Tue, May 17, 2016 at 09:17:20PM +, Lin, Chih-Hsu wrote:
> During the conversion, BAM->CRAM->BAM, using samtools 1.3.1, I found the NM
> tags were changed. Does anyone have solution to that?
Can you give us a concrete example please; an alignment record along
with the relevant @SQ line so w
