[miso-users] Strand-specificity?

[Yarden Katz]

Hi Beth,

Right now, MISO only checks the strandedness for "coherence" when processing reads in paired-end mode.  That is, if you have paired-end reads, it requires them to be on opposite strands.  However, it does not support strandedness as a stranded library prep protocol.  This is on our list, but it is low priority now as we are working on making MISO a true python package that is easier to install via distutils and other python package managers, and until that is done we will not be adding many new features. 

Best, --Yarden

On Dec 23, 2011, at 1:06 PM, Elizabeth Theusch wrote:

> Hello,
> I was wondering if strand-specific information is taken into account by MISO when it is estimating abundances.  If so, how should this be specified in the input file?  If not, are there any plans to incorporate this sort of information in the future?
> Thanks!
> Beth Theusch
> CHORI
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