X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=man%2Fape-internal.Rd;h=c923093a662be4fd910b4e55874e946afb12a773;hb=a2fc961dffe9f9b7994ed880e68c03b2334dc341;hp=441d39f9b1fb8b522b35a072211ebd860d819a57;hpb=048cc125137aa5f9270ce02207ccaa8be02e53a8;p=ape.git

diff --git a/man/ape-internal.Rd b/man/ape-internal.Rd
index 441d39f..c923093 100644
--- a/man/ape-internal.Rd
+++ b/man/ape-internal.Rd
@@ -8,31 +8,11 @@
 \alias{mant.zstat}
 \alias{lower.triang}
 \alias{clado.build}
-\alias{getDurations}
-\alias{getEdgeLengths}
-\alias{getExternalParams}
-\alias{getNEdges}
-\alias{getNFreeParams}
-\alias{getRates}
-\alias{objFuncLogScale}
-\alias{optimTree}
-\alias{phylogram}
-\alias{prepareTree}
-\alias{setTree}
-\alias{buildTreeFromPhylo}
-\alias{destroyTree}
-\alias{getError}
-\alias{nEdges}
-\alias{nNodes}
-\alias{klastorin_nTips}
-\alias{getMisawaTajima}
 \alias{phylogram.plot}
 \alias{cladogram.plot}
 \alias{circular.plot}
 \alias{unrooted.plot}
 \alias{unrooted.xy}
-\alias{node.height}
-\alias{node.height.clado}
 \alias{birth.step}
 \alias{death.step}
 \alias{ht.move}
@@ -40,18 +20,17 @@
 \alias{pos.move}
 \alias{BOTHlabels}
 \alias{chronopl.cv}
-\alias{prepareDNA}
 \alias{floating.pie.asp}
 \alias{checkLabel}
 \alias{getMRCA}
-\alias{plot.cophylo2}
-\alias{plot.phylo.coor}
+\alias{plotCophylo2}
+\alias{plotPhyloCoor}
+\alias{integrateTrapeze}
+\alias{CDF.birth.death}
+\alias{postprocess.prop.part}
+\alias{ONEwise}
 \title{Internal Ape Functions}
 \description{
-  Internal ape functions.
-}
-\note{
-  These are not to be called by the user (or in some cases are just
-  waiting for proper documentation to be written).
+  Internal \pkg{ape} functions.
 }
 \keyword{internal}