From noreply at r-forge.r-project.org  Thu May 15 11:28:48 2014
From: noreply at r-forge.r-project.org (noreply at r-forge.r-project.org)
Date: Thu, 15 May 2014 11:28:48 +0200 (CEST)
Subject: [Vegan-commits] r2870 - pkg/vegan/man
Message-ID: <20140515092848.BEDB818734E@r-forge.r-project.org>

Author: jarioksa
Date: 2014-05-15 11:28:48 +0200 (Thu, 15 May 2014)
New Revision: 2870

Modified:
   pkg/vegan/man/vegdist.Rd
Log:
Veech has re-invented Raup-Crick with equal sampling probabilities

Modified: pkg/vegan/man/vegdist.Rd
===================================================================
--- pkg/vegan/man/vegdist.Rd	2014-04-21 18:41:15 UTC (rev 2869)
+++ pkg/vegan/man/vegdist.Rd	2014-05-15 09:28:48 UTC (rev 2870)
@@ -187,7 +187,10 @@
   and Crick originally suggested that sampling probabilities should be
   proportional to species frequencies (Chase et al. 2011). A simulation
   approach with unequal species sampling probabilities is implemented in
-  \code{\link{raupcrick}} function following Chase et al. (2011).
+  \code{\link{raupcrick}} function following Chase et al. (2011).  The
+  index can be also used for transposed data to give a probabilistic
+  dissimilarity index of species co-occurrence (identical to Veech
+  2013).
   
   Chao index tries to take into account the number of unseen species
   pairs, similarly as in \code{method = "chao"} in
@@ -286,6 +289,9 @@
   classification problems. In: P.W.Murphy (ed.),
   \emph{Progress in Soil Zoology}, 43--50. Butterworths.
 
+  Veech, J. A. (2013). A probabilistic model for analysing species
+  co-occurrence. \emph{Global Ecology and Biogeography} 22, 252--260. 
+
   Wolda, H. (1981). Similarity indices, sample size and
   diversity. \emph{Oecologia} 50, 296--302.
 }