Question: Retrieving BAM files from known isoforms
0
gravatar for priscillamorris90
19 months ago by
priscillamorris900 wrote:

Hi. I'm just wondering how to retrieve BAM files from the isoforms that I i generated from the RNA seq data? I have a few isoforms that I would love to study in details. I have the sequence. I just need to know how do i get the BAM format for these particular isoforms in order for me to determine if there is any mismatch occurred?

isoforms bam • 464 views
ADD COMMENTlink modified 19 months ago by Pierre Lindenbaum120k • written 19 months ago by priscillamorris900
2
gravatar for Pierre Lindenbaum
19 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum120k wrote:

export your bam to bed12 : http://bedtools.readthedocs.io/en/latest/content/tools/bamtobed.html and look in the resulting file if your transcripts are here.

ADD COMMENTlink written 19 months ago by Pierre Lindenbaum120k

thank you for your advise! will try and see and will let you know.

ADD REPLYlink written 19 months ago by priscillamorris900
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