chmExportToFile-method: Export a standalone NGCHM to a file.

In MD-Anderson-Bioinformatics/NGCHM-R: Next Generation Clustered Heat Maps

Export a standalone NGCHM to a file.

Description

Create a standalone viewer for the NGCHM in the specified file. This function requires Java 11 and the NGCHMSupportFiles package.

Usage

chmExportToFile(
  chm,
  filename,
  overwrite = FALSE,
  shaidyMapGen,
  shaidyMapGenJava,
  shaidyMapGenArgs
)

Arguments

chm	The NGCHM to export
filename	The file in which to save the rendered NGCHM
overwrite	Overwrite file iff true (default false)
shaidyMapGen	Path to shaidyMapGen jar file (default to value of environment variable SHAIDYMAPGEN)
shaidyMapGenJava	Path to java executable with which to run shaidyMapGen (default to value of environment variable SHAIDYMAPGENJAVA or java)
shaidyMapGenArgs	Additional arguments to pass to java when running shaidyMapGen (default to value of environment variable SHAIDYMAPGENARGS)

Details

The NGCHMSupportFiles package can be installed from the R-universe repository:

install.packages('NGCHMDemoData',
repos = c('https://md-anderson-bioinformatics.r-universe.dev',
'https://cloud.r-project.org'))

Value

the rendered NGCHM

MD-Anderson-Bioinformatics/NGCHM-R documentation built on April 1, 2024, 12:34 p.m.