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Hi all, I'm writing some functions dealing with sets or lists of genes. There has been a discussion about classes for representing gene sets: http://wiki.fhcrc.org/bioc/GeneSet_Class_Discussion Has someone implemented the discussed ideas or...
Thanks! That seems to be a good starting point. Hans-Ulrich Vincent Carey 525-2265 wrote: > have you looked at bioconductor GSEABase? > lots of infrastructure there. > >> >> I'm writing some functions dealing with sets or lists of genes. There >> has...
Hi all, I implemented a subclass of SummarizedExperiment from the GenomicRanges package. When I call cbind() on two objects of my subclass, I get an object of class SummarizedExperiment and not of my own class. So I have to re...
Dear All, I fitted two non-nested proportional hazards models using the coxph() function from package survival. Now, I would like to apply a model selection test like, e.g., the likelihood ratio test proposed by Vuong. I found an...
Dear All, I want to plot a heat map with annotated columns. Both functions heatmap (stats) and heatmap.2 (gplots) can plot a horizontal side bar that can be used to visualize a categorical variable. In addition to a categorical...
Gregory Warnes wrote: > Hello Hans, > > Do you need *both* a categorical *and* a continuous variable, or just a > continuous variable? > > -Greg > Hello Greg, I want to visualize survival data above the columns. So my continuous variable is follow up time...
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