Changes in version 2025-05-05 (2025-05-05)               

  - Remove includes of R_ext/PrtUtil.h from C code

               Changes in version 2017-05-22 (2017-05-22)               

  - Small changes to avoid note about "R_registerRoutines"

               Changes in version 2015-07-23 (2015-07-23)               

  - Rename plot.res as plot_res.

  - License to GPL-3

                       Changes in version 0.73-2                        

  - Added NAMESPACE.

                       Changes in version 0.72-1                        

  - Fixed links in help files.

  - In anal.leaps, calls to summary.regsubsets() replaced with just
    summary().

                       Changes in version 0.71-7                        

  - To get rid of a warning message in the latest version of R's package
    checks, changed the name of the functions convert.sim and
    convert.output to convertSim and convertOutput, respectively.

                       Changes in version 0.71-6                        

  - Fixed some slight problems in the help files.

                       Changes in version 0.71-4                        

  - Changed the name of the first argument in convert.sim and
    convert.output so that we don't get a warning message in R CMD
    check.

                       Changes in version 0.71-3                        

  - In calls to C code (using the .C() function), now make use of the
    PACKAGE argument.

                       Changes in version 0.71-2                        

  - The last column returned by which.correct() should be labelled
    "incor.unlinked" rather than "incor.total". This is now fixed.

  - Changed a call to error() to stop() in anal.leaps(). (There is no
    function error().)

                       Changes in version 0.70-2                        

  - Fixed a few minor problems in the help files.

                        Changes in version 0.70                         

  - Added forward selection following by backward elimination
    (method="forwback") to the function anal.leaps().

                        Changes in version 0.69                         

  - Edited the documentation files to make them more complete (and to
    remove a repeated typographical error that resulted in the
    descriptions of the arguments not appearing in the help files).

  - Added a function convert.output() for converting the output of
    anal.leaps(), anal.mcmc() and perm() for use with which.correct().

  - Fixed a bug in anal.leaps(): one line was hard-coded for exactly 100
    markers!

                        Changes in version 0.68                         

  - Revised anal.multi2() back, so that MCMC starts at the null model.

                        Changes in version 0.67                         

  - Revised anal.multi2() so that MCMC starts at the model chosen by
    forward selection with BIC, for the first of the bic_mult given.
    Revised sim.mcmc() so that one may choose to do only forward
    selection and MCMC.

                        Changes in version 0.66                         

  - The C function forw_perm() was clearly wrong. I totally re-did it
    (thanks to advice from/discussion with Saunak Sen!)

                        Changes in version 0.65                         

  - There's a bug in anal.all() that causes a core dump. It turned out
    to be the simple problem of having the max.steps argument larger
    than the total number of markers.

                        Changes in version 0.64                         

  - Added anal.multi2() to do everything anal.multi() does, plus run
    MCMC with BIC-delta.

                        Changes in version 0.63                         

  - Added plot.cor() function for plotting the output of
    which.correct(). Revised which.correct() so that the last column is
    the number of unlinked (rather than total) extraneous loci.

                        Changes in version 0.62                         

  - Added functions combine.sims() combine.mcmc() to combine the
    simulation results of multiple runs of anal.multi() or sim.mcmc(),
    respectively.

                        Changes in version 0.61                         

  - Revised which.correct() to give both the total number of extraneous
    loci and the number of extraneous loci on the same chromosome as a
    QTL.

                        Changes in version 0.60                         

  - Added function to call the "leaps" packages to use the
    branch-and-bound procedure, and ported my old MCMC code to do a
    simple MCMC model selection procedure

                        Changes in version 0.56                         

  - Revised "anal.multi" to contain default LOD thresholds that I
    estimated via (extensive) computer simulations.

                        Changes in version 0.55                         

  - Added "anal.multi" function to do repeated simulations + analysis by
    ANOVA, CIM, and forward selection with BIC and permutation tests.

                        Changes in version 0.54                         

  - Completed addition of analysis programs, including the "bump
    finding" function necessary for turning LOD curves from ANOVA/IM and
    CIM into a selected model.

                        Changes in version 0.53                         

  - Added analysis programs.

                        Changes in version 0.51                         

  - Implemented an old (1996) simulation program. Why didn't I look for
    and reuse this code in the first place?

                        Changes in version 0.50                         

  - A new package; the aim is to test different model selection
    approaches to identifying QTLs in backcrosses, in the case of an
    additive model.