[Depmix-commits] r524 - in pkg/depmixS4: . man

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

Author: ingmarvisser
Date: 2012-06-15 16:51:13 +0200 (Fri, 15 Jun 2012)
New Revision: 524

Modified:
   pkg/depmixS4/NEWS
   pkg/depmixS4/README
   pkg/depmixS4/man/depmix.Rd
   pkg/depmixS4/man/depmixS4-package.Rd
Log:
Added comments to NEWS and help files about missing values.

Modified: pkg/depmixS4/NEWS
===================================================================
--- pkg/depmixS4/NEWS	2012-06-15 14:37:52 UTC (rev 523)
+++ pkg/depmixS4/NEWS	2012-06-15 14:51:13 UTC (rev 524)
@@ -2,7 +2,8 @@
 
 Major changes
   
-  o Missing values for responses are now allowed.
+  o Missing values for responses are now allowed. Note that missing values 
+	  in covariates will cause errors. 
     
 Changes in depmixS4 version 1.1-0
   

Modified: pkg/depmixS4/README
===================================================================
--- pkg/depmixS4/README	2012-06-15 14:37:52 UTC (rev 523)
+++ pkg/depmixS4/README	2012-06-15 14:51:13 UTC (rev 524)
@@ -3,21 +3,23 @@
 
 depmixS4 provides a framework for specifying and fitting hidden Markov
 models.  The observation densities use an interface to the glm
-distributions, most of which are now implemented.  Besides these,
-observations can be modelled using the multinomial distribution with
-identity or logistic link function.  The latter provides functionality for
-multinomial logistic responses with covariates.  The transition matrix and
-the initial state probabilities are also modeled as multinomial logistics
-(or multinomials with identity link, which is the default when no
-covariates are present) with the possibility of including covariates.
+distributions, most of which are now implemented.  The vignette that
+accompanies the package has a table with availabel response distributions
+Besides these, observations can be modelled using the multinomial
+distribution with identity or logistic link function.  The latter provides
+functionality for multinomial logistic responses with covariates.  The
+transition matrix and the initial state probabilities are also modeled as
+multinomial logistics (or multinomials with identity link, which is the
+default when no covariates are present) with the possibility of including
+covariates.
 
 Optimization is by default done using the EM algorithm.  When linear
 constraints are included, package Rsolnp is used for optimization (there is
-also support for using Rdonlp2 as optimizer, see details below).  New
+also support for using Rdonlp2 as optimizer, see USING RDONLP2 below).  New
 response distributions can be added by extending the response-class and
 writing appropriate methods for it (dens, and getpars and setpars); an
 example of this is provided on the ?makeDepmix help page.  depmixS4 also
-fits latent class and mixture models, see ?mix for an example.
+fits latent class and mixture models, see ?mix for an example. 
 
 The latest development versions of depmixS4 (and depmix) can be found at: 
 https://r-forge.r-project.org/projects/depmix/

Modified: pkg/depmixS4/man/depmix.Rd
===================================================================
--- pkg/depmixS4/man/depmix.Rd	2012-06-15 14:37:52 UTC (rev 523)
+++ pkg/depmixS4/man/depmix.Rd	2012-06-15 14:51:13 UTC (rev 524)
@@ -18,7 +18,8 @@
 	
 	\code{depmix} creates an object of class \code{depmix}, a dependent
 	mixture model, otherwise known as hidden Markov model.  For a short
-	description of the package see \code{\link{depmixS4}}.
+	description of the package see \code{\link{depmixS4}}. See the vignette 
+	for an introduction to hidden Markov models and the package. 
 	
 }
 
@@ -90,7 +91,7 @@
 	function.  Its help page has examples of specifying a model with a
 	multivariate normal response, as well as an example of adding a
 	user-defined response model, in this case for the ex-gauss
-	distribution.
+	distribution. 
 	
 	If \code{response} is a list of formulae, the \code{response}'s are
 	assumed to be independent conditional on the latent state.
@@ -115,6 +116,9 @@
 	The print function prints the formulae for the response, transition and
 	prior models along with their parameter values.
 	
+	Missing values are allowed in the data, but missing values in the 
+	covariates lead to errors. 
+	
 }
 
 \value{

Modified: pkg/depmixS4/man/depmixS4-package.Rd
===================================================================
--- pkg/depmixS4/man/depmixS4-package.Rd	2012-06-15 14:37:52 UTC (rev 523)
+++ pkg/depmixS4/man/depmixS4-package.Rd	2012-06-15 14:51:13 UTC (rev 524)
@@ -34,8 +34,8 @@
 	\tabular{ll}{
 		Package: \tab depmixS4\cr
 		Type: \tab Package\cr
-		Version: \tab 1.1-0\cr
-		Date: \tab 2011-00-01\cr
+		Version: \tab 1.2-0\cr
+		Date: \tab 2012-06-15\cr
 		License: \tab GPL\cr
 	}