User: darthratus

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darthratus0
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Posts by darthratus

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Comment: C: model.matrix from GDS data
... Hello Gordon, Thank you for the information, it really helped a lot. I do have one more question, however, if I want to perform the analysis to determine which genes are differentially expressed between normal and cancer samples, is what I am doing the most appropriate way ? Would defining contras ...
written 16 months ago by darthratus0
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Comment: C: model.matrix from GDS data
... Hello Gordon, here is the code I ran: source("http://bioconductor.org/biocLite.R") library(limma) library(preprocessCore) library(GEOquery) GDS4718 <- getGEO("GDS4718") Meta(GDS4718) Table(GDS4718)[1:10] eset <- GDS2eSet(GDS4718, do.log = FALSE) pData(eset) sampleNames(eset) design_matrix ...
written 17 months ago by darthratus0
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model.matrix from GDS data
... Hello, I am new at using the packages limma, and GEOquery. I have read the documentation available for both, and I am still a bit lost. This is what I have done: I downloaded a GDS data set and stored in my R session using GEOquery (i.e., GDS <- getGEO("GDSxxx"), where xxx is the identifier). ...
limma geoquery lmfit ebayes model.matrix written 17 months ago by darthratus0

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