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Revision 505 - Directory Listing
Modified Mon Nov 14 19:02:39 2011 UTC (7 years, 9 months ago) by ingmarvisser
Copied from: pkg/depmixS4/R revision 504
Copied release 1.1-0 to tags directory.

Revision 502 - Directory Listing
Modified Wed Nov 2 14:28:53 2011 UTC (7 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Various minor changes for compatibility with R 2.14.0

Revision 500 - Directory Listing
Modified Tue Nov 1 11:56:53 2011 UTC (7 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Updated NEWS file with version 1.1-0 info; removed ddens code as it does not provide any speed improvements.

Revision 498 - Directory Listing
Modified Wed Oct 26 15:36:23 2011 UTC (7 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added error message about missing data.

Revision 497 - Directory Listing
Modified Wed Oct 26 13:31:18 2011 UTC (7 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Fixed a bug in the relative stopping criterion for EM, this time for good.

Revision 496 - Directory Listing
Modified Tue Oct 25 12:41:38 2011 UTC (7 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Fixed a bug in the relative stopping criterion for EM (which resulted in no iterations in some cases with large positive loglikelihoods).

Revision 489 - Directory Listing
Modified Fri Sep 2 13:56:24 2011 UTC (7 years, 11 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Changed line endings to Unix consistently.

Revision 488 - Directory Listing
Modified Thu Sep 1 15:16:58 2011 UTC (7 years, 11 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added documentation for the useC argument in fb/forwardbackward and corrected the PACKAGE argument to the .C call.

Revision 486 - Directory Listing
Modified Wed Aug 17 14:39:43 2011 UTC (8 years ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added an error message for unrecognized arguments to em.control() (which could result in models that never converge)

Revision 485 - Directory Listing
Modified Wed Jul 6 14:32:53 2011 UTC (8 years, 1 month ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added sanity check for the case that nstates=1 combined with non-trivial transition model.

Revision 484 - Directory Listing
Modified Tue Jun 28 16:07:04 2011 UTC (8 years, 1 month ago) by maarten
Original Path: pkg/depmixS4/R
- added a fix for models without covariates/intercepts. In responseGLM and responseMVN the function setpars now exits when length(value) == 0. In setpars.depmix, a check is added whether npar > 0. 

Revision 483 - Directory Listing
Modified Mon Jun 27 09:40:42 2011 UTC (8 years, 1 month ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added sensible error message in case (fit) method is wrongly specified.

Revision 482 - Directory Listing
Modified Thu Jun 23 20:50:17 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Removed call to C-code for apply.

Revision 480 - Directory Listing
Modified Wed Jun 22 20:23:51 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added now working C-code to replace an often apply'd call to flatten an array into a matrix in function fb (5-fold improvement for this operation, but total time savings is limited).

Revision 476 - Directory Listing
Modified Wed Jun 22 11:37:02 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Made useC=TRUE the default so it is always used when optimizing models and computing the likelihood

Revision 475 - Directory Listing
Modified Wed Jun 22 10:25:43 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added conditionals for the homogeneous case in the C-code; working correctly.

Revision 472 - Directory Listing
Modified Wed Jun 22 08:59:11 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Working version of C-code for alpha, beta and xi variables (not optimezed yet).

Revision 471 - Directory Listing
Modified Tue Jun 21 20:50:33 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
C-code for backward variables now correct.

Revision 469 - Directory Listing
Modified Tue Jun 21 13:06:22 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
C-code now return correct forward variables and scaling values; also added an interface function for mix/lca models to the fb function.

Revision 468 - Directory Listing
Modified Mon Jun 20 12:42:27 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Loop over cases and times for forward variables now complete (still to add for the mix case, ie no transition model).

Revision 467 - Directory Listing
Modified Mon Jun 20 08:01:49 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Minor changes to C-code, changed default to useC=FALSE for now.

Revision 465 - Directory Listing
Modified Sun Jun 19 21:07:06 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Initial set up for C code of forward backward algorithm.

Revision 464 - Directory Listing
Modified Fri Jun 17 13:25:47 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added c function and R .C(alls) to it to eventually compute the forward/backward variables with for performance improvement.

Revision 460 - Directory Listing
Modified Wed Jun 15 10:26:59 2011 UTC (8 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
This time really using nobs generic from stats4.

Revision 458 - Directory Listing
Modified Fri Apr 22 07:43:57 2011 UTC (8 years, 4 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Fixed a bug in simulation of Gaussian response models (which was returning all nans).

Revision 456 - Directory Listing
Modified Tue Mar 22 12:02:48 2011 UTC (8 years, 5 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Using AIC/BIC/logLik/nobs generics from stats/stats4 rather than defining them anew (which gave clashes with other packages that did the same).

Revision 453 - Directory Listing
Modified Tue Feb 15 13:24:16 2011 UTC (8 years, 6 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Fixed a bug in simulation of binomial responses.

Revision 449 - Directory Listing
Modified Tue Jan 25 14:37:21 2011 UTC (8 years, 6 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added a meaningful error message in the EM algorithm for lca/mixture 
    models in case the initial log likelihood is NA (thanks to Matthias
    Ihrke for pointing this out).

Revision 448 - Directory Listing
Modified Tue Nov 23 13:13:55 2010 UTC (8 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Final minor changes (NEWS, DESCRIPTION etc) for release 1.0-1

Revision 447 - Directory Listing
Modified Tue Nov 23 12:18:16 2010 UTC (8 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added an error message for multinomial response models with n>1 and link='mlogit' as this case is not handled.

Revision 446 - Directory Listing
Modified Tue Nov 23 08:55:45 2010 UTC (8 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Fixed a bug in multinomial response models with n>1; parameters were not normalized such that they did not sum to unity in those cases.

Revision 445 - Directory Listing
Modified Thu Nov 11 15:12:13 2010 UTC (8 years, 9 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added a check for bad likelihoods when generating starting values.

Revision 444 - Directory Listing
Modified Wed Oct 20 11:01:22 2010 UTC (8 years, 10 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added function em.control that returns the list of em control parameters. This makes future additions to this list easier and gives less clutter in the function definition of fit. The default for EM is now to use random start values.

Revision 428 - Directory Listing
Modified Thu Jul 1 20:47:29 2010 UTC (9 years, 1 month ago) by ingmarvisser
Original Path: pkg/depmixS4/R
More minor edits (convergence message)

Revision 426 - Directory Listing
Modified Thu Jul 1 20:20:08 2010 UTC (9 years, 1 month ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Cleaned up comments, minor edits to messages.

Revision 417 - Directory Listing
Modified Thu Jun 3 12:27:14 2010 UTC (9 years, 2 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
fixed a bug in setting the lower and upper bounds for normal response parameters in GLMresponse

Revision 413 - Directory Listing
Modified Fri Apr 23 15:20:17 2010 UTC (9 years, 4 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Fixed a bug in multinomial models with n>1

Revision 411 - Directory Listing
Modified Wed Mar 10 16:08:33 2010 UTC (9 years, 5 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Minor code cleanups

Revision 406 - Directory Listing
Modified Wed Mar 10 15:46:08 2010 UTC (9 years, 5 months ago) by maarten
Original Path: pkg/depmixS4/R
- removed warning messages from dm_dmvnorm; now checks whether eigenvalues of the covariance matrix are >= 0 and if not, returns NaN without warning

Revision 405 - Directory Listing
Modified Tue Mar 9 19:12:49 2010 UTC (9 years, 5 months ago) by maarten
Original Path: pkg/depmixS4/R
- added random.start option to EM
- fit method now has an em.control argument

Revision 404 - Directory Listing
Modified Tue Mar 9 16:21:10 2010 UTC (9 years, 5 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Added error message in case ntimes in response models and in prior model are in conflict

Revision 403 - Directory Listing
Modified Tue Mar 9 12:43:42 2010 UTC (9 years, 5 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Copied trunk to pkg directory

Revision 402 - Directory Listing
Modified Tue Mar 9 12:40:49 2010 UTC (9 years, 5 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Emptied pkg directory depmixS4

Revision 340 - Directory Listing
Modified Mon Feb 1 13:15:12 2010 UTC (9 years, 6 months ago) by ingmarvisser
Original Path: pkg/depmixS4/R
Copied from: trunk/R revision 335
Copied trunk to pkg directory depmixS4

Revision 330 - Directory Listing
Modified Fri Jan 29 14:13:30 2010 UTC (9 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Removed AIC and logLik generics which are now imported from stats.

Revision 326 - Directory Listing
Modified Thu Jan 28 16:01:18 2010 UTC (9 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Removed redundant parameters in covariance matrix of multivariate normal models (only the lower triangle of sigma is stored now rather than the whole matrix).

Revision 323 - Directory Listing
Modified Thu Jan 21 14:33:15 2010 UTC (9 years, 7 months ago) by maarten
Original Path: trunk/R
fixed bug in fit(MVNresponse): cov.wt now returns a list rather than vector (as previously), changed code to accommodate this

Revision 322 - Directory Listing
Modified Wed Jan 20 13:42:51 2010 UTC (9 years, 7 months ago) by maarten
Original Path: trunk/R
fixed bug (#787) in MVNresponse

Revision 321 - Directory Listing
Modified Wed Jan 20 12:31:56 2010 UTC (9 years, 7 months ago) by ingmarvisser
Original Path: trunk/R
Description et cetera updated to reflect recent changes.

Revision 320 - Directory Listing
Modified Wed Jan 20 11:58:14 2010 UTC (9 years, 7 months ago) by ingmarvisser
Original Path: trunk/R
Function for computing the stationary distribution of a transition probability matrix.

Revision 319 - Directory Listing
Modified Wed Jan 20 11:57:07 2010 UTC (9 years, 7 months ago) by ingmarvisser
Original Path: trunk/R
Added temporary fix for degrees of freedom computation in multinomial response models with identity link.

Revision 318 - Directory Listing
Modified Tue Jan 19 15:01:16 2010 UTC (9 years, 7 months ago) by ingmarvisser
Original Path: trunk/R
Changed setpars to deal with the new multinomial response function.

Revision 317 - Directory Listing
Modified Tue Jan 19 14:30:42 2010 UTC (9 years, 7 months ago) by ingmarvisser
Original Path: trunk/R
Added multinomial response function with identity link (no covariates allowed).

Revision 273 - Directory Listing
Modified Thu Jun 18 11:53:47 2009 UTC (10 years, 2 months ago) by maarten
Original Path: trunk/R
fixed bug in fit(responseGLMMULTINOMIAL): starting weights were set incorrectly

Revision 272 - Directory Listing
Modified Wed May 13 14:57:54 2009 UTC (10 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
Added error message for infeasible model in the fit function, ie when loglike is NaN.

Revision 270 - Directory Listing
Modified Wed May 13 13:24:41 2009 UTC (10 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
Fixed conrows warning (bug #342)

Revision 269 - Directory Listing
Modified Wed May 13 13:07:39 2009 UTC (10 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
Updated todo (and minor comments in some R files)

Revision 263 - Directory Listing
Modified Tue Apr 21 10:10:24 2009 UTC (10 years, 4 months ago) by ingmarvisser
Original Path: trunk/R
Copied from: pkg/R revision 262
Copied pkg to trunk directory

Revision 260 - Directory Listing
Modified Wed Feb 18 12:53:42 2009 UTC (10 years, 6 months ago) by ingmarvisser
Original Path: pkg/R
Moved trunk version to pkg directory

Revision 259 - Directory Listing
Modified Wed Feb 18 12:47:03 2009 UTC (10 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Added tag for release 0.2-0

Revision 257 - Directory Listing
Modified Wed Feb 18 12:06:04 2009 UTC (10 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Changed order of examples in responses.Rd to match the order of models listed, and added some comments

Revision 253 - Directory Listing
Modified Wed Feb 18 11:16:59 2009 UTC (10 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Fixed bug in nlin (bug nr 309), working correctly now, revision 253

Revision 251 - Directory Listing
Modified Tue Feb 17 16:09:56 2009 UTC (10 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Added newx (newdata) argument for predict method of transInit objects (useful in eg plotting logit functions depending on covariates)

Revision 250 - Directory Listing
Modified Tue Feb 17 14:22:50 2009 UTC (10 years, 6 months ago) by ingmarvisser
Original Path: trunk/R
Fixed a bug in setting starting values of transInit models

Revision 229 - Directory Listing
Modified Mon Oct 20 12:14:40 2008 UTC (10 years, 10 months ago) by maarten
Original Path: trunk/R
- fixed new bug in GLMresponse with starting values
- GLMresponse still needs thorough checking! 

Revision 228 - Directory Listing
Modified Thu Oct 9 23:16:41 2008 UTC (10 years, 10 months ago) by maarten
Original Path: trunk/R
- fixed problem in GLMresponse with family=binomial() (treated parameters as matrix)
- in GLMbinomial, starting values are no longer automatically transformed with an inverse link (now only for bi/multi-nomial, if prob=true and only for intercept 

Revision 227 - Directory Listing
Modified Sun Sep 7 21:10:51 2008 UTC (10 years, 11 months ago) by maarten
Original Path: trunk/R
- fixed bug in dens and logDens methods of BINOMresponse (missing size argument)

Revision 226 - Directory Listing
Modified Fri Sep 5 11:55:08 2008 UTC (10 years, 11 months ago) by ingmarvisser
Original Path: trunk/R
added prob=TRUE support for binomial models in GLMresponse

Revision 225 - Directory Listing
Modified Tue Aug 26 21:39:56 2008 UTC (10 years, 11 months ago) by maarten
Original Path: trunk/R
- fixed problem with n>1 in multinomial fitting and simulation
- fixed related (potential) bug in binomial

Revision 224 - Directory Listing
Modified Tue Aug 26 13:16:23 2008 UTC (10 years, 11 months ago) by ingmarvisser
Original Path: trunk/R
Added simulate functie voor mix models

Revision 221 - Directory Listing
Modified Mon Aug 11 09:21:28 2008 UTC (11 years ago) by ingmarvisser
Original Path: trunk/R
Fixed a bug in show method for GLMresponse models

Revision 219 - Directory Listing
Modified Fri Aug 1 14:27:11 2008 UTC (11 years ago) by ingmarvisser
Original Path: trunk/R
Added some comments

Revision 218 - Directory Listing
Modified Fri Aug 1 14:24:08 2008 UTC (11 years ago) by ingmarvisser
Original Path: trunk/R
Changed predict method to deal with multinomial(identity) objects.

Revision 217 - Directory Listing
Modified Fri Aug 1 14:23:17 2008 UTC (11 years ago) by ingmarvisser
Original Path: trunk/R
Changed show method to deal with multinomial(identity) objects.

Revision 216 - Directory Listing
Modified Fri Aug 1 11:56:47 2008 UTC (11 years ago) by ingmarvisser
Original Path: trunk/R
Fixed bug in viterbi.

Revision 215 - Directory Listing
Modified Tue Jul 29 14:35:28 2008 UTC (11 years ago) by ingmarvisser
Original Path: trunk/R
Fixed minor bug in depmix.fit (included drop=FALSE somewhere to deal with models with a single linear constraint)

Revision 214 - Directory Listing
Modified Wed Jul 2 11:53:50 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
simulate(depmix) now takes stationarity of transInit model into account

Revision 213 - Directory Listing
Modified Wed Jul 2 10:00:57 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
simulate(depmix) now forces init@x to be a matrix

Revision 210 - Directory Listing
Modified Tue Jul 1 14:08:44 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
setpars no longer renames elements in parameter list
splitted getpars(mix) into getpars(mix) and getpars(depmix)

Revision 202 - Directory Listing
Modified Tue Jul 1 08:59:49 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
fixed remaining bug in responseMVN related to invsigma

Revision 200 - Directory Listing
Modified Mon Jun 30 10:49:05 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
deleted obsolete simulate file

Revision 199 - Directory Listing
Modified Mon Jun 30 10:47:09 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
put simulate methods in corresponding class files
added separate depmixsim file

Revision 197 - Directory Listing
Modified Mon Jun 30 09:56:10 2008 UTC (11 years, 1 month ago) by ingmarvisser
Original Path: trunk/R
Added generic for simulate

Revision 196 - Directory Listing
Modified Mon Jun 30 09:41:27 2008 UTC (11 years, 1 month ago) by ingmarvisser
Original Path: trunk/R
Added help file for makeDepmix

Revision 195 - Directory Listing
Modified Mon Jun 30 09:10:45 2008 UTC (11 years, 1 month ago) by ingmarvisser
Original Path: trunk/R
Fixed a bug in show method for GLMresponse

Revision 192 - Directory Listing
Modified Fri Jun 27 09:03:30 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
added "dots" to simulate(transInit) for consistency

Revision 190 - Directory Listing
Modified Thu Jun 26 00:14:14 2008 UTC (11 years, 1 month ago) by maarten
Original Path: trunk/R
- fixed simulate documentation and simulate methods (times argument rather than time)

Revision 188 - Directory Listing
Modified Wed Jun 25 14:03:51 2008 UTC (11 years, 1 month ago) by ingmarvisser
Original Path: trunk/R
commit.txt

Revision 187 - Directory Listing
Modified Wed Jun 25 13:58:37 2008 UTC (11 years, 1 month ago) by ingmarvisser
Original Path: trunk/R
Added function nlin to extract the number of linear constraints in fitted models; to be used in computing the number of free parameters (eg for likelihood testing)

Revision 186 - Directory Listing
Modified Tue Jun 24 21:02:54 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R


Revision 185 - Directory Listing
Modified Tue Jun 24 16:04:19 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- added function to generate MVNresponse models
- fixed MVNnorm fit function (now also works without weights
- TODO: setpars function

Revision 184 - Directory Listing
Modified Tue Jun 24 15:35:27 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- fixed bug in NORMresponse (now also works without weights)

Revision 182 - Directory Listing
Modified Tue Jun 24 14:15:26 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Added default w=NULL in the fit function for NORMresponse objects

Revision 181 - Directory Listing
Modified Tue Jun 24 13:11:04 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
changed fit for GLM to be in line with others in the package (used if(missing(w)) w <- NULL rather than default w=NULL

Revision 180 - Directory Listing
Modified Tue Jun 24 13:09:15 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- fixed bug in multinomial fit (for number categories, nnet.default now uses softmax=TRUE rather than entropy=TRUE) 

Revision 179 - Directory Listing
Modified Tue Jun 24 13:07:52 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Added default w=NULL in the fit function for GLMresponse objects

Revision 178 - Directory Listing
Modified Fri Jun 20 13:38:08 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Changed getpars and setpars to deal with mix objects correctly; changed examples in depmix.fit.Rd

Revision 171 - Directory Listing
Modified Tue Jun 17 14:11:27 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Fixed a bug in dens function for binomial models

Revision 170 - Directory Listing
Modified Tue Jun 17 12:52:04 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Added prob argument to setpars for multinom models (internal use only)

Revision 168 - Directory Listing
Modified Tue Jun 17 10:31:00 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Fixed bug in setpars for multinomial models (again)

Revision 167 - Directory Listing
Modified Tue Jun 17 10:06:32 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
changed BINOMresponse so that n>1 is now contained in y matrix as a second column.

Revision 166 - Directory Listing
Modified Tue Jun 17 09:34:30 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Fixed bug in setpars for multinomial models

Revision 165 - Directory Listing
Modified Tue Jun 17 08:48:16 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Fixed bug in makeResponseModels to give a sensible error if the number of start values is incorrect

Revision 164 - Directory Listing
Modified Fri Jun 13 16:05:45 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
set transpose before setpars in fit MULTINOMresponse (as in fit transInit). But there is still a problem in setpars...

Revision 162 - Directory Listing
Modified Fri Jun 13 15:27:20 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- commented simulate generic

Revision 161 - Directory Listing
Modified Fri Jun 13 15:06:32 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- fixed bug in creation of multinom with a factor response

Revision 160 - Directory Listing
Modified Fri Jun 13 14:23:51 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- fixed bug in GLM when response is a 2 column matrix

Revision 158 - Directory Listing
Modified Fri Jun 13 14:08:02 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- fixed bug in multinom

Revision 157 - Directory Listing
Modified Thu Jun 12 13:44:52 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- changed EM so that a simpler routine (not fb) is used for mix models

Revision 156 - Directory Listing
Modified Wed Jun 11 21:06:46 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Added mix class for mixture and latent class models

Revision 155 - Directory Listing
Modified Wed Jun 11 10:26:32 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Deleted depmixNew-test2.R as these are moved to a dontrun section in the examples of fit

Revision 151 - Directory Listing
Modified Tue Jun 10 15:14:02 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
More minor changes in documentation

Revision 149 - Directory Listing
Modified Tue Jun 10 14:09:26 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Added forwardbackward, user accessible function to get the forward and backward variables

Revision 148 - Directory Listing
Modified Tue Jun 10 13:16:50 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Renamed veterbi2.R to viterbi.R (this is the one in use)

Revision 147 - Directory Listing
Modified Tue Jun 10 13:14:35 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Removed two of three viterbi versions

Revision 140 - Directory Listing
Modified Mon Jun 9 13:08:25 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- updated simulate method.
- simulate(response,nsim,...) now returns a (T*nsim)*ncol(response@y) matrix
- simulate(depmix,nsim,...) now returns an object of class depmix.sim with additional slot for states

Revision 138 - Directory Listing
Modified Mon Jun 9 11:59:20 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Added simulate as a generic so the trunk version builds again

Revision 137 - Directory Listing
Modified Mon Jun 9 11:55:55 2008 UTC (11 years, 2 months ago) by ingmarvisser
Original Path: trunk/R
Changed responseGLMGAMMA.r to responseGLMGAMMA.R (note the capital)

Revision 136 - Directory Listing
Modified Thu May 29 10:50:55 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R


Revision 135 - Directory Listing
Modified Thu May 29 10:40:53 2008 UTC (11 years, 2 months ago) by maarten
Original Path: trunk/R
- added Poisson and Gamma GLMresponse models
- reorganized simulate methods

Revision 134 - Directory Listing
Modified Wed May 21 10:18:43 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
- fixed simulate method, now works but still needs proper checking

Revision 133 - Directory Listing
Modified Wed May 21 08:47:49 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
- fixed new error in GLMMULTINOM.R 

Revision 132 - Directory Listing
Modified Wed May 21 00:04:29 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
- fixed EM, now works on Test 4 in depmixNew-test1.R :-)

Revision 131 - Directory Listing
Modified Tue May 20 16:41:14 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R


Revision 128 - Directory Listing
Modified Tue May 20 10:42:09 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
Renamed remotely

Revision 127 - Directory Listing
Modified Tue May 20 09:30:40 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
 -fixed bug in simulate.r

Revision 126 - Directory Listing
Modified Tue May 20 07:31:27 2008 UTC (11 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
Put most functions into separate R files (part 2)

Revision 124 - Directory Listing
Modified Fri May 16 20:40:03 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
-added simulation method for several models

Revision 123 - Directory Listing
Modified Fri May 9 15:24:09 2008 UTC (11 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
Remove responses.R (which has become empty)

Revision 122 - Directory Listing
Modified Fri May 9 15:23:14 2008 UTC (11 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
Put most functions into separate R files

Revision 119 - Directory Listing
Modified Fri May 9 10:50:01 2008 UTC (11 years, 3 months ago) by ingmarvisser
Original Path: trunk/R
minor changee

Revision 117 - Directory Listing
Modified Fri May 2 16:38:36 2008 UTC (11 years, 3 months ago) by maarten
Original Path: trunk/R
corrected error (only in trunk version)

Revision 114 - Directory Listing
Modified Thu Mar 27 22:25:06 2008 UTC (11 years, 4 months ago) by ingmarvisser
Original Path: trunk/R
Moved apply(dens etc) into fb and lystig, updated todo

Revision 106 - Directory Listing
Added Sun Mar 23 15:07:33 2008 UTC (11 years, 5 months ago) by ingmarvisser
Original Path: trunk/R
Final minor changes

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