[BioC] Where is DEXSeq bioconductor package?

Simon Anders anders at embl.de
Thu Aug 4 17:47:14 CEST 2011

HI Fabrice

On 08/04/2011 05:41 PM, Fabrice Tourre wrote:
> When I run python script dexseq_count.py in DEXseq. I have these error.

> UserWarning: Malformed SAM line: MRNM != '*' although flag bit&0x0008

You can ignore a warning. It is due to a strange way how 'bwa' 
interprets the SAM format.

>      counts[ '_loqaqual' ] += 1
> KeyError: '_loqaqual'

This looks like a typo; should read '_lowaqual'. I've corrected it in 
SVN. Strange that it hasn't caused trouble before; maybe I introduced 
the typo recently.


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