[Picante-commits] r45 - pkg/man

[noreply at r-forge.r-project.org]

Author: skembel
Date: 2008-03-27 02:05:35 +0100 (Thu, 27 Mar 2008)
New Revision: 45

Removed:
   pkg/man/phylo2phylog.Rd
Modified:
   pkg/man/utility.Rd
Log:
minor documentation cleanup/edits

Deleted: pkg/man/phylo2phylog.Rd
===================================================================
--- pkg/man/phylo2phylog.Rd	2008-03-25 18:41:34 UTC (rev 44)
+++ pkg/man/phylo2phylog.Rd	2008-03-27 01:05:35 UTC (rev 45)
@@ -1,22 +0,0 @@
-\name{phylo2phylog}
-\alias{phylo2phylog}
-%- Also NEED an '\alias' for EACH other topic documented here.
-\title{ Convert ape phylo to ade4 phylog }
-\description{
-  Convert ape phylo to ade4 phylog
-}
-\usage{
-phylo2phylog(phy, ...)
-}
-%- maybe also 'usage' for other objects documented here.
-\arguments{
-  \item{phy}{ phylo object }
-  \item{\dots}{ Additional arguments to newick2phylog }
-}
-
-\value{
-  phylog object
-}
-
-\author{ Steve Kembel <skembel at berkeley.edu> }
-\keyword{manip}

Modified: pkg/man/utility.Rd
===================================================================
--- pkg/man/utility.Rd	2008-03-25 18:41:34 UTC (rev 44)
+++ pkg/man/utility.Rd	2008-03-27 01:05:35 UTC (rev 45)
@@ -1,5 +1,4 @@
 \name{utility}
-\alias{t2p2t}
 \alias{df2vec}
 \alias{internal2tips}
 \alias{node.age}
@@ -7,6 +6,7 @@
 \alias{sortColumns}
 \alias{sortRows}
 \alias{taxaShuffle}
+\alias{t2p2t}
 \title{ Picante utility functions }
 \description{
   Picante utility functions for tree and data manipulation
@@ -18,7 +18,7 @@
 phylo2phylog(phy, ...)
 sortColumns(x)
 sortRows(x)
-taxaShuffle(x, strata)
+taxaShuffle(x)
 t2p2t(phy, species)
 }
 
@@ -45,7 +45,7 @@
 }
 
 \details{
-  Various utility functions. \code{taxaShuffle} code taken from \code{\link[vegan]{mantel}}
+  Various utility functions for manipulating trees, data, etc.
 }
 
 \author{ Steven Kembel <skembel at berkeley.edu>, David Ackerly <dackerly at berkeley.edu> }