# NEWS
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# What: What are the news for GeneticsPed?
# Time-stamp: <2007-09-20 00:49:16 ggorjan>
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1.1.0
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+ 2007-09-12 Gregor Gorjanc
o Added prune function for pruning/trimming the pedigree. It does not
work on pedigree, but assumes a data.frame with defined structure.
Adaption needed.
o We depend on genetics package since gpLong2Wide and hwp assume that
input is of genotype class.
o Added two utility functions (gpLong2Wide and hwp) for work with
gpi(). There is also a separate help page for them.
o Internal fixes in gpi
- no need to transpose inputs for Fortran call anymore
- check that there are no NA values in gp and hwp
+ 2007-04-25 Gregor Gorjanc
o Version bump to follow BioC releases.
0.1.4
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+ 2007-04-19 Gregor Gorjanc
o Added internal .get* functions for retrieving slot values and use of
it.
+ 2007-04-18 Gregor Gorjanc
o R CMD check should now fail also when R error (usually call to
stop()) occurs in unit testing.
o Added unit tests for sort, examples in help page and clarified sort
help page.
+ 2007-04-?? Dave Henderson
o Implemented sort by pedigree information only.
0.1.3
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+ 2007-04-06 Gregor Gorjanc
o New small dataset Falconer5.1.
o Added sex(), sex<-(), ascendantSex() and ascendantSex<-()
functions.
o Added some more tests for relationshipAdditive, inverseAdditive and
inbreeding.
0.1.2
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+ 2007-04-01 Gregor Gorjanc
o Now we are more rigorous for value of ascendantSex argument in
Pedigree(). It must accord to values in sex column, if that one is
passed of course.
o MASS added to depends due to use of fractions() in many places in
documnetation.
o Added vignette on quantitative genetic (animal) model and
model.matrix.Pedigree() functions for educational
purposes.
o Created data directory and added pedigree example Mrode2.1 and
Mrode3.1.
o Added unit tests for genetic relationship matrices that should test
all related functions - mainly against Mrode's book examples -
runit.genRelMatrix.R.
o Added arguments sort and names to inverseAdditive(),
relationshipAdditive() and inbreeding().
o Reworked core for relationshipAdditive() into vectorized form.
o Added geneFlowT(), geneFlowTinv(), geneFlowM() and mendelianSamplingD()
functions.
+ 2007-03-02 Gregor Gorjanc
o Registration of native routines - src/register.cc.
o Added gpi() function.
0.1.1
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+ ?
o Temporarily removed unknown funcs, due to planned move to BioC and
change to S4.
o All depends are now in gdata --> removing ggmisc.
+ 2006-03-29 Gregor Gorjanc
o codeUnit to get internal codes for subject and ascendants if factors
are used.
o Handled unused levels in nlevels.pedigree and summary.pedigree now
produces a simple summary
o Started to implement checks in check.pedigree and friends
o Proper factor handling
+ 2006-03-16 Gregor Gorjanc
o Playing around with NA/unknown representation - it is very likely
that I messed up some things with factors --> subject to changes.
0.1.0
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o Initial version