[Pomp-commits] r272 - in pkg/inst: . doc

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

Author: kingaa
Date: 2010-06-23 20:11:58 +0200 (Wed, 23 Jun 2010)
New Revision: 272

Modified:
   pkg/inst/ChangeLog
   pkg/inst/NEWS
   pkg/inst/doc/pomp.bib
Log:
- add NEWS entry on the Liu & West implementation
- update reference database


Modified: pkg/inst/ChangeLog
===================================================================
--- pkg/inst/ChangeLog	2010-06-23 17:21:13 UTC (rev 271)
+++ pkg/inst/ChangeLog	2010-06-23 18:11:58 UTC (rev 272)
@@ -1,3 +1,29 @@
+2010-06-23  kingaa
+
+	* [r271] DESCRIPTION, NAMESPACE: - update the NAMESPACE and
+	  DESCRIPTION files
+	* [r270] R/bsmc.R, man/bsmc.Rd, tests/ou2-bsmc.R,
+	  tests/ou2-bsmc.Rout.save: - add functionality for the Bayesian
+	  sequential Monte Carlo algorithm of Liu & West, implemented as
+	  'bsmc'.
+
+2010-06-22  kingaa
+
+	* [r269] R/bsplines.R: - simplify
+
+2010-06-14  kingaa
+
+	* [r268] DESCRIPTION, data/dacca.rda, data/euler.sir.rda,
+	  data/gillespie.sir.rda, data/ou2.rda, data/rw2.rda,
+	  data/verhulst.rda, inst/ChangeLog, inst/NEWS,
+	  inst/data-R/dacca.R, inst/doc/advanced_topics_in_pomp.pdf,
+	  inst/doc/intro_to_pomp.pdf, man/dacca.Rd, src/cholmodel.c: The
+	  cholera transmission model from King, A. A., Ionides, E. L.,
+	  Pascual, M., and Bouma, M. J. (2008) Inapparent infections and
+	  cholera dynamics, Nature 454:877--880 together with data from the
+	  Dacca district of historic Bengal are now included.
+	  Data provided courtesy of Menno J. Bouma.
+
 2010-05-31  kingaa
 
 	* [r267] DESCRIPTION, NAMESPACE, R/nlf.R, R/trajectory-pomp.R: -

Modified: pkg/inst/NEWS
===================================================================
--- pkg/inst/NEWS	2010-06-23 17:21:13 UTC (rev 271)
+++ pkg/inst/NEWS	2010-06-23 18:11:58 UTC (rev 272)
@@ -1,3 +1,8 @@
+NEW IN VERSION 0.30-1:
+    o  pomp now includes an implementation of the approximate Bayesian Sequential Monte Carlo algorithm of Liu & West (Liu, J. & West, M. (2001) Combining Parameter and State Estimation in Simulation-Based Filtering in Doucet, A.; de Freitas, N. & Gordon, N. J. (eds.) Sequential Monte Carlo Methods in Practice, Springer, New York, pp. 197--224).
+       This algorithm is implemented in the method 'bsmc': see 'help(bsmc)' for details.
+       Thanks to Matt Ferrari and Michael Lavine for the implementation.
+       
 NEW IN VERSION 0.29-5:
     o  The cholera transmission model from King, A. A., Ionides, E. L., Pascual, M., and Bouma, M. J. (2008) Inapparent infections and cholera dynamics, Nature 454:877--880 together with data from the Dacca district of historic Bengal are now included.
        See 'help(dacca)' for details.

Modified: pkg/inst/doc/pomp.bib
===================================================================
--- pkg/inst/doc/pomp.bib	2010-06-23 17:21:13 UTC (rev 271)
+++ pkg/inst/doc/pomp.bib	2010-06-23 18:11:58 UTC (rev 272)
@@ -1,4 +1,4 @@
-% This file was created with JabRef 2.5.
+% This file was created with JabRef 2.6.
 % Encoding: ISO8859_1
 
 @ARTICLE{Arulampalam2002,
@@ -297,6 +297,18 @@
   timestamp = {2008.08.13}
 }
 
+ at INCOLLECTION{Liu2001b,
+  author = {Liu, J and West, M.},
+  title = {Combining Parameter and State Estimation in Simulation-Based Filtering},
+  booktitle = {Sequential {M}onte {C}arlo Methods in Practice},
+  publisher = {Springer, New York},
+  year = {2001},
+  editor = {Doucet, A. and de Freitas, N. and Gordon, N. J.},
+  pages = {197--224},
+  owner = {kingaa},
+  timestamp = {2009.09.22}
+}
+
 @ARTICLE{Wearing2009,
   author = {Helen J Wearing and Pejman Rohani},
   title = {Estimating the duration of pertussis immunity using epidemiological