[Vegan-commits] r1515 - pkg/vegan/man

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

Author: jarioksa
Date: 2011-02-28 16:48:41 +0100 (Mon, 28 Feb 2011)
New Revision: 1515

Modified:
   pkg/vegan/man/scores.Rd
Log:
more about scores

Modified: pkg/vegan/man/scores.Rd
===================================================================
--- pkg/vegan/man/scores.Rd	2011-02-28 15:39:21 UTC (rev 1514)
+++ pkg/vegan/man/scores.Rd	2011-02-28 15:48:41 UTC (rev 1515)
@@ -26,8 +26,17 @@
   only the default method. For other methods, see, e.g.,
   \code{\link{scores.cca}}, \code{\link{scores.rda}},
   \code{\link{scores.decorana}}.
+
+  All \pkg{vegan} ordination functions should have a \code{scores}
+  method which should be used to extract the scores instead of
+  directly accessing them. Scaling and transformation of scores should
+  also happen in the \code{scores} function. If the \code{scores}
+  function is available, the results can be plotted using
+  \code{\link{ordiplot}}, \code{\link{ordixyplot}} etc., and the
+  ordination results can be compared in \code{\link{procrustes}}
+  analysis.
   
-  The \code{scores.default} function is used to extracts scores from
+  The \code{scores.default} function is used to extract scores from
   non-\pkg{vegan} ordination results.  Most standard ordination
   methods of libraries \pkg{mva}, \pkg{multiv} and \pkg{MASS} do not
   have a specific \code{class}, and no specific method can be written