pbatR: P2BAT

This package provides data analysis via the pbat program, and an alternative internal implementation of the power calculations via simulation only. For analysis, this package provides a frontend to the PBAT software, automatically reading in the output from the pbat program and displaying the corresponding figure when appropriate (i.e. PBAT-logrank). It includes support for multiple processes and clusters. For analysis, users must download PBAT (developed by Christoph Lange) and accept it's license, available on the PBAT webpage. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.

Install the latest version of this package by entering the following in R:
install.packages("pbatR")
AuthorThomas Hoffmann <tjhoffm@gmail.com>, with contributions from Christoph Lange <clange@hsph.harvard.edu>
Date of publication2013-03-30 17:31:14
MaintainerThomas Hoffmann <tjhoffm@gmail.com>
LicenseGPL
Version2.2-9
http://sites.google.com/site/thomashoffmannproject/ http://www.biostat.harvard.edu/~clange/default.htm http://bioinformatics.oxfordjournals.org/cgi/content/short/22/24/3103

View on CRAN

Functions

affectionPhe Man page
as.cped Man page
as.ped Man page
as.pedlist Man page
as.phe Man page
as.pped Man page
c2bat Man page
fread.cped Man page
fread.ped Man page
fread.phe Man page
is.cped Man page
is.finished Man page
is.ped Man page
is.pedlist Man page
is.phe Man page
is.pped Man page
obfuscate Man page
pbat Man page
pbat.clean Man page
pbat.concatenate Man page
pbat.create.commandfile Man page
pbat.files Man page
pbat.firsttime Man page
pbat.get Man page
pbat.getmode Man page
pbat.getwine Man page
pbat.help Man page
pbat.last Man page
pbat.last.rawResults Man page
pbat.load Man page
pbat.m Man page
pbat.obj Man page
pbat.power Man page
pbat.powerCmd Man page
pbat.set Man page
pbat.setmode Man page
pbat.setmode.defaults Man page
pbat.setVersionCheck Man page
pbat.setwine Man page
pbat.status Man page
pbat.unwork Man page
pbat.work Man page
ped.markerNames Man page
plotCPed Man page
plot.pbat Man page
plotPed Man page
print.pbat Man page
read.cped Man page
read.ped Man page
read.phe Man page
read.pped Man page
sort.cped Man page
sort.ped Man page
sort.phe Man page
summary.pbat Man page
top Man page
write.cped Man page
write.pbat Man page
write.pbat.csv Man page
write.ped Man page
write.phe Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.