27 September 2013: statmod 1.4.18

- Update reference for permp().

- bug fix to elda() so that it returns NA for the tests instead of
  giving an error when the Fisher information for the slope isNA.

- Exact roles of authors specified in DESCRIPTION file.

- All usage lines in help files wrapped at 90 characters to ensure
  that code is not truncated in pdf manual.

30 January 2013: statmod 1.4.17

- new function eldaOneGroup() to conduct limiting dilution analysis
  when there is only one treatment group.  This function implements
  a globally convergent Newton iteration to avoid occasional problems
  with lack of convergence of the usual glm calculations.
  
- elda() (aka limdil) now call eldaOneGroup() to get confidence
  intervals and score tests.  This improves the numerical reliability
  of the function. 

- more detail added to the elda() help page about the interpretations
  of the goodness of fit tests.

- new function forward() for forward selection in multiple regression
  with an unlimited number of candidate covariates.

- license upgraded to GPL from LGPL.

28 September 2012: statmod 1.4.16

- gauss.quad() and gauss.quad.prob() now use Fortran to solve
  tridiagonal eigenvalue problem, with considerable gain in speed.
  Updates to references for the same two functions.

- Formatting of gauss.quad test output to ensure agreement between
  Unix and Windows.

- mixedModel2 test code no longer prints REML residuals, because
  these are not reproducible between Windows and Unix.

6 August 2012: statmod 1.4.15

- improvements to glmnb.fit() to make it more numerically robust.

- use of lgamma() in gauss.quad() to avoid floating overflows
  with kind="jacobi".

19 November 2011: statmod 1.4.14

- power.fisher.test() now accepts a new argument alternative
  which indicates the rejection region.

25 October 2011: statmod 1.4.13

- bug fix to glmnb.fit() when dispersion is a vector argument.

18 October 2011: statmod 1.4.12

- glmnb.fit() now accepts vector dispersion argument.

- change to residual returned by tweedie glms when var.power=2
  and y==0.  In this case the theoretical residual is -Inf.
  The value returned by the tweedie family is finite, but smaller
  than previous.

29 June 2011: statmod 1.4.11

- updates to help page for sage.test

21 April 2011: statmod 1.4.10

- bug fix to glmnb.fit().

9 March 2011: statmod 1.4.9

- bug fix to glmnb.fit().

- bug correction to sage.test() when library sizes are equal.
  The p-values returned change slightly.

3 November 2010: statmod 1.4.8

- new function glmnb.fit(), which implements Levenberg-modified
  Fisher scoring to fit a negative binomial generalized linear
  model with log-link.

28 May 2010: statmod 1.4.7

- permp() now has two new arguments 'method' and 'twosided'.
  The function now provides both exact and approximate methods
  for computing permutation p-values.

19 April 2010: statmod 1.4.6

- psi.hampel() and rho.hampel() renamed to .psi.hampel and
  .rho.hampel and removed from export function list.

16 April 2010: statmod 1.4.5

- new function mscale() which is the robust estimation of a scale 
  parameter using Hampel's redescending psi function.
- new function psi.hampel() which is the Hampel's redescending psi 
  function.
- new function rho.hampel() which is the integral of Hampel's 
  redescending psi function.

30 March 2010: statmod 1.4.4

- remlscore() now returns a component iter giving the number of
  iterations used.

18 February 2010: statmod 1.4.3

- new function permp() which calculates exact p-values for
  permutation tests when permutations are sampled with replacement.

5 January 2010: statmod 1.4.2

- new argument 'dispersion' for glm.scoretest(), allowing the
  user to set a known value for the dispersion parameter.
- ensure chisq values from limdil() remain positive, even when small.
- correct the format of chisq value in print.limdil().

29 Sep 2009: statmod 1.4.1

- fixes to documentation links to other packages
- bug fix to glmgam.fit() when there are exact zeros
  in the data or fitted values.
- add more goodness of fit tests to elda().
- improvements to print.limdil method.
- argument log added to dinvgauss(), giving the option of
  returning the density on the log-scale.

6 May 2009: statmod 1.4.0

- new function glm.scoretest() to compute likelihood score tests
  for terms in generalized linear models.
- Improvements to elda() and print.limdil() to avoid glm fits in
  extreme data situations with 0% or 100% positive response,
  improving speed and avoiding warnings.
- Improvements to print.limdil method.
- New function .limdil.allpos(). It calculates lower bound of
  the limdil confidence interval when all tests respond by using
  a globally convergent Newton interation.
- Modify limdil() on lower bound of the confidence interval when all 
  tests respond. 
- New methods print.limdil and plot.limdil for limdil objects.
- The output from limdil() is now a limdil class object.
- Added \eqn{} markup to equations in pinvgauss.Rd
  remlscor.Rd and remlscorgamma.Rd.
- Elso et al (2004) reference added to compareGrowthCurves
  help page.

18 November 2008: statmod 1.3.8

- qres.nbinom now works in more situations.  It now accepts
  a model fit from MASS::glm.nb or a model fit using
  MASS:negative.binomial() when the theta argument is unnamed.
  Previously the theta argument had to be named, as in
  negative.binomial(theta=2).

20 July 2008: statmod 1.3.7

- reference added to help page for compareGrowthCurves()
- the saved output from the automatic tests updated for R 2.7.1

07 April 2008: statmod 1.3.6

- fixes to limdil() on estimate and upper bound of the confidence interval when all 
  cells respond to all tests.
- bug fix in limdil() which produced wrong calculation of the upper bound 
  and lower bound of the confidence interval when there are more than one group and
  no cells responds or all cells respond to all tests in one of the groups. 

24 March 2008: statmod 1.3.5

- The function remlscoregamma(), removed in 2004, restored to the package
  with updated references.

11 February 2008: statmod 1.3.4

- bug fix in limdil() which produced error when calculating the confidence
  intervals of multiple groups and all cells respond in one of the groups. 

12 January 2008: statmod 1.3.3

- the limdil function now has the capability to handle and compare
  multiple experiments or groups.

24 September 2007: statmod 1.3.1

- non-ascii European characters removed from Rd files
- Shackleton reference added to limdil.Rd
- fixed some non-matched brackets in other Rd files

15 October 2006: statmod 1.3.0

- package now has a NAMESPACE which simply exports all objects
- new function fitNBP()
- new function plotGrowthCurves()

4 January 2006: statmod 1.2.4

- fixes to gauss.quad.prob when n=1 or n=2

12 December 2005: statmod 1.2.3

- remlscore() was failing when rank of X was only 1, now fixed.

20 October 2005: statmod 1.2.2

- mixedModel2Fit() now outputs REML residuals
- randomizedBlock() & randomizedBlockFit() renamed to mixedModel2() & mixedModel2Fit()

4 July 2005: statmod 1.2.1

- remlscore() now outputs covariance matrices for estimated coefficients
- redundant copy of randomizedBlockFit() removed

22 June 2005: statmod 1.2.0

- /inst/doc/index.html created
- change log (this file) moved to /inst/doc directory of package
- new function limdil()

14 June 2005: statmod 1.1.1

- change to rinvgauss() to avoid numerical problems with subtractive cancellation when lambda<<mu

5 Oct 2004: statmod 1.1.0

- new wrapper functions qresiduals() and qresid() for quantile residuals
- bug fixes to qres.nbinom() qres.tweedie(), S-Plus code finally changed to R

27 Sep 2004: statmod 1.0.8

- bug fix in tweedie() - stop linkinv checking for neg or small arguments

19 Sep 2004: statmod 1.0.7

- fix problems with remlscor.Rd and remlscorgamma.Rd.  (The function
  remlscoregamma documented by remlscorgamma.Rd was removed soon after
  this.)
- edits to 1.StatMod.Rd and glmgamfit.Rd
- lm.fit (effects component) now used to transform to residual space in randomizedBlockFit()

20 Mar 2004: statmod 1.0.6

- new overall help entry 1.StatMod
- edited welding.Rd
- output component $sigmasquared from randomizedBlock changed to $varcomp
- arg fixed.estimated changed to only.varcomp in randomizedBlock()
- edit glmgamfit.Rd
- continued work on glmgam.fit() to prevent singularity when some mu are very small
- glmgam.fit doesn't warn when maxit exceeded but instead records number of iteration
- arguments tol, maxit, trace added to randomizedBlock() and randomizedBlockFit()
- edit sagetest.Rd
- edit randomizedBlock.Rd

11 Feb 2004: statmod 1.0.5
- mlreg.fit() and mlreg.fit.zero() removed

10 Feb 2004: statmod 1.0.4
- minor bug fixes to glmgam.fit
- mlreg.fit and mlreg.fit.zero updated to work in R 1.9.0

6 Jan 2004: statmod 1.0.3
- function fisher.test2() removed
- bug fix in sage.test() which produced error with zero counts and equal sized libraries
