bic.pdf.hclust: Write PDF file containing heierarchical clustering tree

In bic-mskcc/bicrnaseq: MSKCC Bioinformatics Core RNASeq

Description

Quickly plot heirarchical clustering of data with several default parameters like width, height, font size, etc.

Quickly plot heirarchical clustering of data with several default parameters like width, height, font size, etc.

Usage

bic.pdf.hclust(dat, conds = NULL, file.name = NULL, title = "",
  width = 20, height = 14, lwd = 3, cex.main = 2.5, cex.lab = 3,
  cex = 3, xlab = "", ylab = "", sample.labels = NULL)

bic.pdf.hclust(dat, conds = NULL, file.name = NULL, title = "",
  width = 20, height = 14, lwd = 3, cex.main = 2.5, cex.lab = 3,
  cex = 3, xlab = "", ylab = "", sample.labels = NULL)

Arguments

dat	matrix containing data to plot
conds	vector of sample conditions, in same order as column names in matrix or sample.labels; if given, nodes will be colored according to conditions; Default: NULL
file.name	file name. Default: "tmp.pdf"
title	Title of plot
width	plot width (see plot docs)
height	plot height (see plot docs)
lwd	line width
cex.main	size of title
cex.lab	size of labels
cex	font size
xlab	label of x axis
ylab	label of y axis
sample.labels	Vector of sample labels. Default: column names in matrix
dat	matrix containing data to plot
file.name	PDF file to which plot should be saved; Default: NULL
title	Title of plot
sample.labels	Vector of sample labels; Default: column names in matrix
conds	vector of sample conditions, in same order as column names in matrix or sample.labels; if given, nodes will be colored according to conditions; Default: NULL
width	plot width (see plot docs)
height	plot height (see plot docs)
lwd	line width
cex.main	size of title
cex.lab	size of labels
cex	font size
xlab	label of x axis
ylab	label of y axis

bic-mskcc/bicrnaseq documentation built on May 24, 2019, 3:04 a.m.