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Old 12-22-2011, 09:21 AM   #1
tboothby
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Join Date: May 2011
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Default Annotating reference followed by mapping?

Hi all,
I am trying to map RNAseq data generated from 3 different time points during my organisms development to a reference transcriptome.

I have assembled the reference transcriptome de novo, and am wondering if there is a way (and if so how) to annotate that reference, such that when I map my reads to it (TOPHAT/BOWTIE) I can get annotations of my mapped reads?

*edit* by annotations I basically mean blast results (E.g. what the transcript is)

Does that make sense? I assume there is a way to do this, but I don't know how.

Cheers,
T

Last edited by tboothby; 12-22-2011 at 09:30 AM.
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