[BioC] maSigPro: Warning

[Ana Conesa]

Dear Ingrid,

These warnigns mean that there are 9 genes in which a few data points
are substantially influential to the regression model. These could be
outliers and therefore it is recommended to look in more detail into
these genes and remove from the analysis if necessary. You can find
these genes under the slot influ.info. of the T.fit object.

Best regards

Ana Conesa
Bioinformatics Department
Centro de Investigaciones Principe Felipe
Avda. Autopista Saler 16
46013 Valencia Spain
http://bioinfo.cipf.es



Ingrid H. G. ?stensen wrote:
> Hi
> 
> I am trying to learn the maSigPro package but I get a warning:
> 
>> tstep <- T.fit(fit, design = fit$dis, step.method = "backward", min.obs = design$min.obs, alfa = fit$Q, nvar.correction = FALSE)
> [1] "Warning: 9 genes with influential data at slot influ.info. Model validation for these genes is recommended"
> 
> I get a similar warning when I use the example data set.
> 
> What does it mean?
> 
> 
>> sessionInfo()
> R version 2.5.1 (2007-06-27) 
> i386-pc-mingw32 
> 
> locale:
> LC_COLLATE=English_United Kingdom.1252;LC_CTYPE=English_United Kingdom.1252;LC_MONETARY=English_United Kingdom.1252;LC_NUMERIC=C;LC_TIME=English_United Kingdom.1252
> 
> attached base packages:
> [1] "tools"     "stats"     "graphics"  "grDevices" "utils"     "datasets"  "methods"   "base"     
> 
> other attached packages:
> maSigPro  Biobase   xtable   impute    limma 
>  "2.0.1" "1.14.1"  "1.5-1"  "1.0-5" "2.10.5" 
> 
> 
> Regards,
> Ingrid
> 
> 	[[alternative HTML version deleted]]
> 
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