Sub-Projects

[edit] New Model Fitting Functions

Logistic regression with single random effect (and/or mixed effects). --- Andrew D. Martin 2005/04/12 16:37
SUR model. --- Andrew D. Martin 2005/01/11 11:39
Mixed logit model. --- Andrew D. Martin 2005/03/09 13:23
Regression with t errors. --- Andrew D. Martin 2005/03/09 13:23
SUR with multivariate-t errors. --- Andrew D. Martin 2005/03/09 13:23
Re-work MCMCpanel, with an eye towards compatibility with nlme and the eventual implementation of a general glmm fitting function. --- Andrew D. Martin 2005/01/09 21:56
Fix ordinal data models to better handle cases when some levels have no data. --- Andrew D. Martin 2005/02/17 19:02
Think about implementing generalized linear mixed models for continuous, dichotomous, count, nominal (?), and ordinal (?) outcomes. --- Andrew D. Martin 2005/04/12 16:39

Add vignettes and more realistic examples-- perhaps from good political science articles. --- Kevin M. Quinn 2005/02/19 22:25
Carefully proofread and edit the MCMCpack documentation. --- Kevin M. Quinn 2005/05/14 27:39

We need to go back over the MCMCpack developer specification and make sure that it is still accurate given the current version of MCMCpack. --- Kevin M. Quinn 2005/02/21 21:35
Facilities to automate roll-out. --- Kevin M. Quinn 2005/05/14 17:50

Release Scythe as an R package and change dependencies. This is worthwhile if and only if other packages are using Scythe (such as Jas's Matching package). --- Andrew D. Martin 2005/01/09 21:57
Get the cross-compiler working with the entire Scythe library. Currently some functions are missing in the cross-compiler, which means that MCMCpack does not contain the latest version of Scythe. --- Andrew D. Martin 2005/03/09 13:51
This is a Scythe thing and I've posted this on the Scythe wiki as well, but currently there is not an inverse gamma density (or log-density) in Scythe. This really should be added as should other standard densities that are missing. --- Kevin M. Quinn 2005/03/21 10:26

Profile all MCMCpack code and optimize for speed. --- Andrew D. Martin 2005/03/09 13:29
Stress test all MCMCpack model fitting functions. --- Andrew D. Martin 2005/03/09 13:29
Coverage tests for MCMCpack. --- Andrew D. Martin 2005/03/09 13:29
Validate all model-fitting functions using the approach described here: [1]. --- Andrew D. Martin 2005/04/15 10:28

Develop coda4, an updated version of the coda library that uses S4 classes. This would generalize the mcmc object to allow it to carry other things to allow for, among other things, prior and posterior prediction. Some of the computation that is intensive should be written in C++. This should replicate and then extend the current version of coda. We should talk to Martyn Plummer about this before moving forward. --- Andrew D. Martin 2005/03/08 17:33

MCMCpanel needs to be fixed. It is currently faithful to Chib and Carlin (1999) "On MCMC Sampling in Hierarchical Longitudinal Models". Statistics and Computing. 9: 17-26. The problem is that there are a number of typos in this piece that also show up in the MCMCpanel code. --- Kevin M. Quinn 2005/04/15 10:00 **The major problem (the full conditional for beta) has been fixed as of 6/9/2005. This has been checked into stable and merged with devel. There may well be some other problems here. Using the validation software on this model should be a priority.** --- Kevin M. Quinn 2005/06/09 11:00
Look carefully at bayesm package, listing model overlap, comparing speed, accuracy, etc. --- Andrew D. Martin 2005/04/16 15:21
Change error checks that use syntax such as

 if (x == y){ ... }

to checks that use identical() and all.equal() --- Kevin M. Quinn 2005/05/03 11:05