is.finished

pbat.load

pbat.concatenate

'pbat' object (result of pbat.m, pbat.obj,
 pbat.files). If NULL / left empty, then the results are taken from
 what was run in the GUI interface.

pbatObj

pbat.load: If TRUE it will remove intermediate files that setup the
 job submission interface (but no other results, and not the
 command-files sent to pbat); see also pbat.clean. If FALSE, nothing
 else is done. NOTE, when TRUE (which is the default), if you run
 this more than once, you will get TRUE only once, and then FALSE the
 rest of the times.
pbat.concatenate: If clean is TRUE, then output that went into the
 concatenated file will be deleted. Default is FALSE, as this has
 been a primary area of continual changes in PBAT, and so you may not
 want to do this until you have checked the output.

clean

filename

Options when 'clusterRefresh' has been set to 0 (so that the current
 process is batched). See <code>pbat.set</code> for details.
is.finished() returns if PBAT execution has terminated.
pbat.load() loads in PBAT output.
pbat.concatenate() concatenates output files (without reading them
 into an R object).

interface

cluster

This R package provides power calculations via internal simulation methods. The package also provides a frontend to the now abandoned PBAT program (developed by Christoph Lange), and reads in the corresponding output and displays results and figures when appropriate. The license of this R package itself is GPL. However, to have the program interact with the PBAT program for some functionality of the R package, users must additionally obtain the PBAT program from Christoph Lange, and accept his license. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.

Thomas Hoffmann

pbatR

Pedigree/Family-Based Genetic Association Tests Analysis and
Power

cluster function

<dl> <dt>pbatObj</dt>
<dd>'pbat' object (result of pbat.m, pbat.obj,
 pbat.files). If NULL / left empty, then the results are taken from
 what was run in the GUI interface.</dd> <dt>clean</dt>
<dd>pbat.load: If TRUE it will remove intermediate files that setup the
 job submission interface (but no other results, and not the
 command-files sent to pbat); see also pbat.clean. If FALSE, nothing
 else is done. NOTE, when TRUE (which is the default), if you run
 this more than once, you will get TRUE only once, and then FALSE the
 rest of the times.
pbat.concatenate: If clean is TRUE, then output that went into the
 concatenated file will be deleted. Default is FALSE, as this has
 been a primary area of continual changes in PBAT, and so you may not
 want to do this until you have checked the output.</dd> <dt>filename</dt>
<dd>output filename</dd></dl>

Arguments

Cluster result functions — cluster

<dl>

 <dt>pbatObj</dt>
<dd>'pbat' object (result of pbat.m, pbat.obj,
 pbat.files). If NULL / left empty, then the results are taken from
 what was run in the GUI interface.</dd>

 <dt>clean</dt>
<dd>pbat.load: If TRUE it will remove intermediate files that setup the
 job submission interface (but no other results, and not the
 command-files sent to pbat); see also pbat.clean. If FALSE, nothing
 else is done. NOTE, when TRUE (which is the default), if you run
 this more than once, you will get TRUE only once, and then FALSE the
 rest of the times.
pbat.concatenate: If clean is TRUE, then output that went into the
 concatenated file will be deleted. Default is FALSE, as this has
 been a primary area of continual changes in PBAT, and so you may not
 want to do this until you have checked the output.</dd>

 <dt>filename</dt>
<dd>output filename</dd>

</dl>

cluster: Cluster result functions

Description

Usage

Arguments

See Also