GENE.E (version 1.6.0)

to.genee: to.genee

Description

R interface to view a matrix in GENE-E

Usage

to.genee(mdat, row.annotations=NULL, column.annotations=NULL, show.rownames=T, show.colnames=T, row.hclust=NULL, column.hclust=NULL, url='http://localhost:9998')

Arguments

mdat

a matrix.

row.annotations

a data frame containing row annotations.

column.annotations

a data frame containing column annotations.

show.rownames

Whether to show the row names of the matrix in GENE-E.

show.colnames

Whether to show the column names of the matrix in GENE-E.

row.hclust

An object of class hclust to show in GENE-E. If provided, the matrix and annotations will be reordered to reflect the tree produced by the clustering process.

column.hclust

An object of class hclust to show in GENE-E. If provided, the matrix and annotations will be reordered to reflect the tree produced by the clustering process.

url

GENE-E URL.

Details

R interface to GENE-E.

Examples

# not run
# z = matrix(rnorm(30),nrow=5,ncol=6);
# row.names(z) <- LETTERS[1:NROW(z)];
# colnames(z) <- LETTERS[1:NCOL(z)];
# row.annotations <- data.frame(y=1:5, char = I(letters[1:5]))
# L3 <- LETTERS[1:3]  
# column.annotations <- data.frame(y=1:6, char = I(letters[1:6]), fac=sample(L3, 6, replace=TRUE))
# to.genee(z, row.annotations, column.annotations, column.hclust=hclust(dist(t(z))));

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