User: shinobee

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shinobee20
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Posts by shinobee

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Answer: A: 100 % Coverage for Gene ID Mapping
... They use another function like: ae.annots <- AnnotationDbi::select( x = hgu133a.db, keys = rownames(data), columns = "ENTREZID", keytype = "PROBEID" ) But still we encounter the problems, I mentioned: One probe ID to many Entrez ID mapping sort( ...
written 5 months ago by shinobee20
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100 % Coverage for Gene ID Mapping
... I've encounter with some gene ids, not having Entrez ID correspondence and some probe IDs may have same Entrez ID. How do you solve this problem? biocLite("KEGGdzPathwaysGEO") #Alzheimer # Title: Incipient Alzheimer's Disease: Microarray Correlation Analyses # URL: http://www ...
R pathway analysis gene id mapping written 5 months ago by shinobee20
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Answer: A: Over Representation Vs Enrichment Analysis
... Over- representation methods compare sets of genes annotated to pathways to a list of those genes that are significantly deferentially expressed (DE) between two phenotypes. Enrichment methods employ a “soft” version of over-representation based on a summary statistic to characterize the level of di ...
written 9 months ago by shinobee20
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Preparing Microarray Data to analyze
... I couldn't find a clear solution how to prepare microarray data to analyze it. I have 2 examples: 1. install.packages("plsgenomics") library("plsgenomics") data(Colon) data<-t(Colon$X) rownames(data)<-Colon$gene.names grp<-Colon$Y grp = as.factor(grp) If we c ...
R written 12 months ago by shinobee20

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