[BioC] error in DEXSeq fitDispersionFunction()

Alejandro Reyes alejandro.reyes at embl.de
Wed Aug 8 00:06:55 CEST 2012

Dear Georg,

Thanks for your email and noticing the error.  A parameter of the 
glmnb.fit function (statmod package) changed recently from "start" to 
"coef.start". That was making some problems in DEXSeq, but I adapted the 
DEXSeq code to it. Could you try to update to the last version of the 
svn (1.3.16)?

Best wishes,

ps. I added copy to the Bioconductor mailing list in case someone is 
interested, could be helpful for people having the same error message

> Dear Alejandro,
> some time ago you helped me to solve a problem with
> estimateDispersions() in the DEXSeq package. I had to interrupt working
> on these data, but now I picked it up again and there seems to be
> another problem. This time estimateDispersins does not generate any
> results (as fa as I can tell), but without an error message. I attached
> my example data, the script and the messages to this mail. It would
> extremely nice of you, if you could have a look into it and give me a
> hint about what is going on.
> Best wishes,
> Georg

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