[Genabel-commits] r815 - pkg/GenABEL/man
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Tue Dec 6 02:23:18 CET 2011
Author: yurii
Date: 2011-12-06 02:23:17 +0100 (Tue, 06 Dec 2011)
New Revision: 815
Modified:
pkg/GenABEL/man/as.character.gwaa.data.Rd
pkg/GenABEL/man/as.character.snp.coding.Rd
pkg/GenABEL/man/as.character.snp.data.Rd
pkg/GenABEL/man/as.character.snp.strand.Rd
pkg/GenABEL/man/as.data.frame.gwaa.data.Rd
pkg/GenABEL/man/as.double.gwaa.data.Rd
pkg/GenABEL/man/as.double.snp.data.Rd
pkg/GenABEL/man/as.genotype.gwaa.data.Rd
pkg/GenABEL/man/as.genotype.snp.data.Rd
pkg/GenABEL/man/as.hsgeno.gwaa.data.Rd
pkg/GenABEL/man/as.hsgeno.snp.data.Rd
pkg/GenABEL/man/merge.gwaa.data.Rd
pkg/GenABEL/man/merge.snp.data.Rd
pkg/GenABEL/man/plot.check.marker.Rd
pkg/GenABEL/man/plot.scan.gwaa.2D.Rd
pkg/GenABEL/man/plot.scan.gwaa.Rd
pkg/GenABEL/man/summary.check.marker.Rd
pkg/GenABEL/man/summary.snp.data.Rd
Log:
changes in documentation as required by the latest R-devel version
Modified: pkg/GenABEL/man/as.character.gwaa.data.Rd
===================================================================
--- pkg/GenABEL/man/as.character.gwaa.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.character.gwaa.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
\code{\link{gwaa.data-class}} to "character"
}
\usage{
- as.character.gwaa.data(x, ...)
+ \method{as.character}{gwaa.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{gwaa.data-class}}}
Modified: pkg/GenABEL/man/as.character.snp.coding.Rd
===================================================================
--- pkg/GenABEL/man/as.character.snp.coding.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.character.snp.coding.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "character"
}
\usage{
- as.character.snp.coding(x, ...)
+ \method{as.character}{snp.coding}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{snp.coding-class}}}
Modified: pkg/GenABEL/man/as.character.snp.data.Rd
===================================================================
--- pkg/GenABEL/man/as.character.snp.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.character.snp.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,8 @@
to "character"
}
\usage{
- as.character.snp.data(x, ...)
+ \method{as.character}{snp.data}(x, ...)
+% as.character.snp.data(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{snp.data-class}}}
Modified: pkg/GenABEL/man/as.character.snp.strand.Rd
===================================================================
--- pkg/GenABEL/man/as.character.snp.strand.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.character.snp.strand.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "character"
}
\usage{
- as.character.snp.strand(x, ...)
+ \method{as.character}{snp.strand}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{snp.strand-class}}}
Modified: pkg/GenABEL/man/as.data.frame.gwaa.data.Rd
===================================================================
--- pkg/GenABEL/man/as.data.frame.gwaa.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.data.frame.gwaa.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
\code{\link{gwaa.data-class}}
}
\usage{
- as.data.frame.gwaa.data(x, ...)
+ \method{as.data.frame}{gwaa.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{data.frame-class}}}
Modified: pkg/GenABEL/man/as.double.gwaa.data.Rd
===================================================================
--- pkg/GenABEL/man/as.double.gwaa.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.double.gwaa.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "double"
}
\usage{
- as.double.gwaa.data(x, ...)
+ \method{as.double}{gwaa.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{gwaa.data-class}}}
Modified: pkg/GenABEL/man/as.double.snp.data.Rd
===================================================================
--- pkg/GenABEL/man/as.double.snp.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.double.snp.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "double"
}
\usage{
- as.double.snp.data(x, ...)
+ \method{as.double}{snp.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{snp.data-class}}}
Modified: pkg/GenABEL/man/as.genotype.gwaa.data.Rd
===================================================================
--- pkg/GenABEL/man/as.genotype.gwaa.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.genotype.gwaa.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "genotype" data frame
}
\usage{
- as.genotype.gwaa.data(x, ...)
+ \method{as.genotype}{gwaa.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{gwaa.data-class}}}
Modified: pkg/GenABEL/man/as.genotype.snp.data.Rd
===================================================================
--- pkg/GenABEL/man/as.genotype.snp.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.genotype.snp.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "genotype" data frame
}
\usage{
- as.genotype.snp.data(x, ...)
+ \method{as.genotype}{snp.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{snp.data-class}}}
Modified: pkg/GenABEL/man/as.hsgeno.gwaa.data.Rd
===================================================================
--- pkg/GenABEL/man/as.hsgeno.gwaa.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.hsgeno.gwaa.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "hsgeno" data frame
}
\usage{
- as.hsgeno.gwaa.data(x, ...)
+ \method{as.hsgeno}{gwaa.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{gwaa.data-class}}}
Modified: pkg/GenABEL/man/as.hsgeno.snp.data.Rd
===================================================================
--- pkg/GenABEL/man/as.hsgeno.snp.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/as.hsgeno.snp.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
to "hsgeno" data frame
}
\usage{
- as.hsgeno.snp.data(x, ...)
+ \method{as.hsgeno}{snp.data}(x, ...)
}
\arguments{
\item{x}{An object of \code{\link{snp.data-class}}}
Modified: pkg/GenABEL/man/merge.gwaa.data.Rd
===================================================================
--- pkg/GenABEL/man/merge.gwaa.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/merge.gwaa.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -5,7 +5,7 @@
function to merge two objects of gwaa.data-class
}
\usage{
-merge.gwaa.data(x, y, ... )
+ \method{merge}{gwaa.data}(x, y, ...)
}
\arguments{
\item{x}{the first object of \code{\link{gwaa.data-class}}}
Modified: pkg/GenABEL/man/merge.snp.data.Rd
===================================================================
--- pkg/GenABEL/man/merge.snp.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/merge.snp.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -5,7 +5,8 @@
function to merge two objects of snp.data-class
}
\usage{
-merge.snp.data(x, y, ... , error_amount = 1e+06, replacena = TRUE, forcestranduse = FALSE, sort = TRUE, intersected_snps_only = FALSE)
+ \method{merge}{snp.data}(x, y, ... , error_amount = 1e+06, replacena = TRUE,
+ forcestranduse = FALSE, sort = TRUE, intersected_snps_only = FALSE)
}
\arguments{
\item{x}{the first object of \code{\link{snp.data-class}}}
Modified: pkg/GenABEL/man/plot.check.marker.Rd
===================================================================
--- pkg/GenABEL/man/plot.check.marker.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/plot.check.marker.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
\code{\link{check.marker}}
}
\usage{
-plot.check.marker(x, y, ...)
+ \method{plot}{check.marker}(x, y, ...)
}
\arguments{
\item{x}{Object of class "check.marker", as returned by \code{\link{check.marker}}
Modified: pkg/GenABEL/man/plot.scan.gwaa.2D.Rd
===================================================================
--- pkg/GenABEL/man/plot.scan.gwaa.2D.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/plot.scan.gwaa.2D.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -6,7 +6,7 @@
\code{\link{scan.glm.2D}} or \code{\link{scan.haplo.2D}}
}
\usage{
-plot.scan.gwaa.2D(x, y, ..., df=1)
+ \method{plot}{scan.gwaa.2D}(x, y, ..., df=1)
}
%- maybe also 'usage' for other objects documented here.
\arguments{
Modified: pkg/GenABEL/man/plot.scan.gwaa.Rd
===================================================================
--- pkg/GenABEL/man/plot.scan.gwaa.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/plot.scan.gwaa.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -5,8 +5,8 @@
Plots results of GWA analysis
}
\usage{
-plot.scan.gwaa(x, y, ..., df=1, ystart=0, col=c("blue","green"),
- sort=TRUE, ylim, delta = 1 , main = getcall(x))
+ \method{plot}{scan.gwaa}(x, y, ..., df=1, ystart=0, col=c("blue","green"),
+ sort=TRUE, ylim, delta = 1 , main = getcall(x))
}
%- maybe also 'usage' for other objects documented here.
\arguments{
Modified: pkg/GenABEL/man/summary.check.marker.Rd
===================================================================
--- pkg/GenABEL/man/summary.check.marker.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/summary.check.marker.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -7,7 +7,7 @@
of marker which did not pass this or that criteria
}
\usage{
-summary.check.marker(object, ...)
+ \method{summary}{check.marker}(object, ...)
}
\arguments{
\item{object}{object of class \code{\link{check.marker-class}}}
Modified: pkg/GenABEL/man/summary.snp.data.Rd
===================================================================
--- pkg/GenABEL/man/summary.snp.data.Rd 2011-12-06 01:21:51 UTC (rev 814)
+++ pkg/GenABEL/man/summary.snp.data.Rd 2011-12-06 01:23:17 UTC (rev 815)
@@ -11,7 +11,7 @@
allowing meta-analysis) and LRT P-value for HWE test are listed
}
\usage{
-summary.snp.data(object, ...)
+ \method{summary}{snp.data}(object, ...)
}
%- maybe also 'usage' for other objects documented here.
\arguments{
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