User: darthratus
darthratus • 0
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Posts by darthratus
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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 20 months ago by
darthratus • 0
0
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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 20 months ago by
darthratus • 0
1
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... 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). ...
written 20 months ago by
darthratus • 0
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