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Showing results 11 to 20 of 632.


Function affectionPhe [pbatR v2.2-13]
keywords
interface
title
Affection Phenotype Object
description
Creates a phenotype object from a pedigree object (see `ped' and `phe'), preserving affection status. Mostly used internally, or as a substitute offset fix for the GUI.
Function pbat.help [pbatR v2.2-13]
keywords
interface
title
Help and Reporting Information
description
Provides some helpful suggestions and information if you are having some troubles getting the package set up (often tends to be version related). Information useful for reporting.
Function generic [pbatR v2.2-13]
keywords
interface
title
`pbat' Object Generic Routines
description
Summary routines for the results of `pbat', `pbat.last', `pbat.m', `pbat.obj', and `pbat.files'. Only a logrank analysis can be plotted.
Function c2bat [pbatR v2.2-13]
keywords
interface
title
C2BAT
description
C2BAT (c) Matt McQueen, Jessica Su, Christoph Lange.
Function pbat.status [pbatR v2.2-13]
keywords
interface
title
PBAT Status of Run
description
Provides status information, i.e. if there were any errors.
Function write.pbat [pbatR v2.2-13]
keywords
interface
title
Saving `pbat' Object
description
Writes a `pbat' object (the result of calling pbat.m) to disk.
Function pbat.set [pbatR v2.2-13]
keywords
interface
title
Set Pbat Parameters
description
All of these values are retained, even after closing and restarting R. pbat.set sets the name of the pbat executable. pbat.get gets the current stored name of the pbat executable. pbat.setmode sets the mode (single, multiple, or cluster), with pbat.setmode.defaults returning it to default values. pbat.getmode returns the current mode specifications. pbat.setVersionCheck sets whether to check the version on startup. pbat.setwine sets pbat up for use with wine. Intended for mac OS (darwine), or linux 32-bit version (temporarily with wine). Download the windows version of pbat, and use pbat.set to point it to pbat*.exe. See details below. pbat.getwine returns the value, leave empty for windows
Function cped [pbatR v2.2-13]
keywords
interface
title
Phenotype Object
description
Creates, tests, reads, or writes an object of class cped.
Function pbat.work [pbatR v2.2-13]
keywords
interface
title
pbatRwork Temp Directory
description
Creates a temporary 'pbatRwork' directory, and moves to it. This can be created in the same directory as a pedigree or phenotype file by passing those as parameters instead.
Function ped [pbatR v2.2-13]
keywords
interface
title
Pedigree Object
description
Creates, tests, reads, or writes objects of type ped or pedlist to be used with the pbat commands. The ped class inherits the data.frame structure, and is almost identical to the data.frame object described to create it, only with some special reserved names. The pedlist class inherits the list structure, and is almost identical to the list object described to create it, only with some special reserved names. The `pped' functions provide support for a more compressed form of input, that can be read in faster, and so may be faster when running in clustered mode.