genes1d {made4} | R Documentation |
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.
genes1d(array, n = 5, axis = 1, listgenes = FALSE)
array |
A matrix or
data.frame . Typically a $co or $li from
bga , cia or
dudi . |
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 $li file) |
listgenes |
A logical, If TRUE a list containing the variables at each ends of the axes are returned |
... |
further arguments passed to or from other methods |
Genes1d is similar to link[made4:genes]{genes}
, but returns
an index of genes at the ends of one axes.
Returns a vector or list of vectors.
Aedin Culhane
See Also as genes
data(khan) if (require(ade4, quiet = TRUE)) { khan.coa<-ord(khan$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