Changes in version 1.3 (2012-04-10) Changes o Changes in the code for iccbin to reflect changes in package lme4. o Function .First.lib (defunct) was removed. o File DESCRIPTION was changed. o File NAMESPACE was added (default setting). Changes in version 1.2 (2010-10-10) Changes o Function icc was removed and replaced with function iccbin, with several computations methods for the intra-class correlation coefficient in the case of binomial data. o Help pages were changed accordingly. Changes in version 1.1-35 (2010-10-05) Changes o Corrects code in betabin and quasibin to avoid a note in package building. Changes in version 1.1-34 (2010-10-04) Changes o Corrects a bug in the shwo method for objects of class icc (error in the computation of the F test). o Improved description of the icc function (help page). Changes in version 1.1-33 (2010-04-13) Changes o Synchronise version of splitbin and its help page with version available in package tdisplay http://forums.cirad.fr/logiciel-R/viewforum.php?f=5. o Internal changes in function icc to reflect changes in splitbin. Changes in version 1.1-32 (2010-04-03) Bug o Corrected a bug in the print method for Wald test objects. New feature o df.residual method for objects of class glimQL, and corresponding changes in the documentation. Changes in version 1.1-29 (2008-10-10) Bug o Corrected a bug in the predict method for objects of classe glimML and glimQL, and its documentation. Changes in version 1.1-27 (2008-08-26) New o CITATION file. Changes o Alter the functions to compute AIC and AICc to avoid redefining standard generic functions from the stats package, after a bug report on R-Help and suggestions by P Dalgaard and M Maechler. o Alter functions betabin and negbin to better manage the case when the Hessian matrix is singular. o Many invisible changes in documentation to comply with more stringent checks during package installation and building. Changes in version 1.1-24 (2007-10-01) Changes o Maintenance change in the file dja.Rd to comply with new recommandations as from 2.6.0. Changes in version 1.1-23 Changes o Maintenance change in the file DESCRIPTION to comply with new recommandations as from 2.6.0. Changes in version 1.1-22 (2007-05-23) New o The cloglog link was missing for quasibin models (though it was indicated in the documentation). Changes in version 1.1-21 (2007-04-07) DOCUMENTATION o Mismatches were fixed between arguments in the code and documentation (predict methods for objects of classes glimML and glimPQL). Changes in version 1.1-20 (2007-04-05) DOCUMENTATION o Mismatches were fixed between arguments in the code and documentation (residuals methods for objects of classes glimML and glimPQL). Changes in version 1.1-19 (2007-04-01) NEW FEATURES o In negbin and betabin, the (default) maximum number of iterations was set to 2000 in the call to optim. A new argument "control" was introduces in the 2 functions and their help pages were amended. BUGS o A bug was corrected in the residuals method for S4 objects of class glimML (incorrect use of the extractor function "$" instead of "@"). Changes in version 1.1-18 (2007-01-13) NEW FEATURES o In negbin and betabin, display was switched to 4 digits in scientific notation. BUGS o No warning was issued when convergence was not obtained after optim iterations. A slot "msg" was added to fitted objects of class "glimML" to store the message returned by optim. o An error occurred when model was fitted with hessian = FALSE. DOCUMENTATION o Documentation was changed to reflect these modifications. Some messages released by negbin and betabin were corrected. Changes in version 1.1-14 BUGS o A bug occurred when the hessian matrix was singular (overpameterized model) in models fitted with betabin or negbin. This was fixed. A new slot "singular.hessian" was added to fitted objects of class "glimML". o There was a bug in the coef method for objects of class glimML when at least one of the explanatory variable was a factor had unused levels. To overcome this problem, new slots "fixed.param" and "random.param" were added to fitted objects of class "glimML". DOCUMENTATION o Documentation was changed to reflect these modifications. Changes in version 1.1-13 (2006-10-15) DOCUMENTATION o The help page for the package (?aod) was out of date. Changes in version 1.1-12 (2006-10-07) INSTALLATION o The package "boot" is now suggested to remove a warning during package installation. Changes in version 1.1-11 NEW FEATURES o The display of wald.test()'s output was slightly changed. Changes in version 1.1-10 (2006-05-04) BUGS o The code of the log-likelihood function was changed in betabin and negbin to avoid warnings when a covariate was used to model the within-group correlation, and one of the "random" coeffcient was set to 0 (warnings were related to the use of ifelse). These warnings caused a very slow execution with R 2.3.0, probably because of some changes in the functions handling warnings and errors (tryCatch, etc.). Changes in version 1.1-9 (2006-05-02) NEW FEATURES o In function splitbin(), any variable of mode character is now transformed into a factor before data processing. DOCUMENTATION o New help page describing the package. Changes in version 1.1-8 (2005-07-20) NEW FEATURES o The number of observations was added as an attribute of the number returned by "logLik". o The corrected AIC (AICc) was added to the output of the function "AIC" and included in the comparison statistics of the anova method for objects of formal class "glimML". o A new formal class "aic" was created, with a summary method to compute Akaike difference and Akaike weights from a list of models to be compared. o A control was added in "betabin" and "negbin" to check the presence of lines with null weight (thanks to Jérémy Bouyer). o The show method for objects of formal class "glimML" was slightly altered: AICc was added to the output and a new presentation was adopted for log- likelihood and related statistics. DOCUMENTATION o The documentation of functions "AIC", "anova" and "logLik" was revised to reflect the changes in these functions. Changes in version 1.1-4 (2005-07-09) BUGS o The name of the first model was always "object" in the anova method for objects of formal class glimML. NEW FEATURES o The slot "digits" was removed for objects of formal class anova.glimML. Changes in version 1.1-3 (2005-07-01) DOCUMENTATION o Minor revisions of help pages: spelling in different places and reference change for fonction negbin. Changes in version 1.1-2 (2005-06-09) DOCUMENTATION o Minor revisions of help pages. BUGS o A wrong title line was removed in the display of models of class "glimML". Changes in version 1.1-1 (2005-06-07) NEW FEATURES o Revision of code and help in the S4 framework. o Add packages "methods" and "stats" in the "Depends" field of the file DESCRIPTION (thanks to Kurt Hornik). o "logLik" and "AIC" methods for objects of formal class "glimML". o New "summary" method for objects of class "glimML". o New formal class "summary.glimML" to represent the summary of objects of formal class "glimML". BUGS o Fixed a lot of missing links and undocumented classes and objects, thanks to Kurt Hornik. Changes in version 1.0-2 NEW FEATURES o S4 generic functions are now explicitely defined. BUGS o In anova.glimML(), arguments digits now works. DOCUMENTATION o Help pages for classes icc and varbin. Changes in version 1.0-1 DOCUMENTATION o Minor changes in documentation.