[Vegan-commits] r750 - in pkg/vegan: inst man

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

Author: jarioksa
Date: 2009-03-22 08:00:15 +0100 (Sun, 22 Mar 2009)
New Revision: 750

Modified:
   pkg/vegan/inst/ChangeLog
   pkg/vegan/man/add1.cca.Rd
Log:
add1.cca help page got better examples of usage

Modified: pkg/vegan/inst/ChangeLog
===================================================================
--- pkg/vegan/inst/ChangeLog	2009-03-18 03:22:48 UTC (rev 749)
+++ pkg/vegan/inst/ChangeLog	2009-03-22 07:00:15 UTC (rev 750)
@@ -4,6 +4,9 @@
 
 Version 1.16-15 (opened Mar 10, 2009)
 
+	* add1/drop1 help: better example after a query of usage in R
+	mailing list. 
+
 	* oecosimu & permatswap: much faster 'burnin' implemented through
 	'thin', and hence using a single C loop instead of multiple calls
 	and allocations to an R object.
@@ -11,7 +14,7 @@
 	* as.mcmc.permat: provides same functionality for permat objects
 	as as.mcmc.oecosimu for oecosimu objects.
 
-	* burnin and thin in permatswap: same default values (0 and 1,
+	* permatswap: same default values of 'burnin' and 'thin'  (0 and 1,
 	respectively) are set for permatswap and oecosimu functions.
 	Previous defaults for permatswap were in conflict with oecosimu
 	when called by permat.control.

Modified: pkg/vegan/man/add1.cca.Rd
===================================================================
--- pkg/vegan/man/add1.cca.Rd	2009-03-18 03:22:48 UTC (rev 749)
+++ pkg/vegan/man/add1.cca.Rd	2009-03-22 07:00:15 UTC (rev 750)
@@ -64,9 +64,16 @@
   output. Functions \code{\link{cca}}, \code{\link{rda}} and
   \code{\link{capscale}} produce result objects for these functions.}
 \examples{
-data(varespec)
-data(varechem)
-step(rda(varespec ~  1, varechem), reformulate(names(varechem)), test="perm")
+data(dune)
+data(dune.env)
+## Automatic model building with permutation tests
+step(rda(dune ~  1, dune.env), reformulate(names(dune.env)), test="perm")
+## Manual model building
+## -- define the maximal model for scope
+mbig <- rda(dune ~  ., dune.env)
+## -- define an empty model to start with
+m0 <- rda(dune ~ 1, dune.env)
+## -- manual selection and updating
 }
 \keyword{multivariate }
 \keyword{ models}