Question

ReportingTools does not work with PFAMHyperGResult object

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jcorreadar • 0

@jcorreadar-6773

Last seen 10.2 years ago

United States

As Suárez-Fariñas reported before, I also tried to use publish function from ReportingTools and it can not recognize the object of class "PFAMHyperGResult".

The application of the function to an object from "PFAMHyperGResult"

> publish(object, Report, selectedIDs=probids, annotation.db="org.Hs.eg",
categorySize=2,
makePlot=TRUE)

is returning this error: Error in if (dim(df)[1] < 1) { : argument is of length zero

reportingtools • 1.2k views

ADD COMMENT • link updated 10.2 years ago by Laurent Gatto 1.6k • written 10.2 years ago by jcorreadar • 0

score 0 · Answer 1 · 2014-09-23

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Laurent Gatto 1.6k

@laurent-gatto-5645

Last seen 6 weeks ago

Belgium

You might need to re-install ReportingTools and AnnotationDbi - see [1] for details.

[1] https://stat.ethz.ch/pipermail/bioc-devel/2014-September/006266.html

ADD COMMENT • link 10.2 years ago Laurent Gatto 1.6k

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You might have to re-install more packages than that, actually: GOstats, Category, AnnotationDbi and
ReportingTools according to [1]. Thank you for bringing this up on Bioc-devek, James!

[1] https://stat.ethz.ch/pipermail/bioc-devel/2014-September/006268.html

ADD REPLY • link 10.2 years ago Laurent Gatto 1.6k