Description Usage Arguments Details Value Author(s) See Also Examples
Lists the top N variables from the positive and negative ends of an axis. Returns a list of N variables that have the max and min. Given a \$co or \$li file it will return that variables at the ends of the axis.
1 |
array |
A |
n |
An integer indicating the number of variables to be returned. Default is 5. |
axis |
An integer indicating the column of x. Default is 1 (first axis, of \$co or \$li file) |
listgenes |
A logical, If TRUE a list containing the variables at each ends of the axes are returned |
... |
further arguments passed to or from other methods |
Genes1d is similar to link[made4:genes]{genes}
, but returns
an index of genes at the ends of one axes.
Returns a vector or list of vectors.
Aedin Culhane
See Also as genes
1 2 3 4 5 6 7 8 9 10 | data(khan)
if (require(ade4, quiet = TRUE)) {
khan.coa<-ord(khan$train)
}
ind<-topgenes(khan.coa, ends="pos")
ind.ID<-topgenes(khan.coa, ends="pos", labels=khan$gene.labels.imagesID)
ind.symbol<-topgenes(khan.coa, ends="pos", labels=khan$annotation$Symbol)
Top10.pos<- cbind("Gene Symbol"=ind.symbol,
"Clone ID"=ind.ID, "Coordinates"=khan.coa$ord$co[ind,], row.names=c(1:length(ind)))
Top10.pos
|
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