https://github.com/cran/coin
Tip revision: 0289f99ccfd46ac2cc6252345c78725044a9f199 authored by Torsten Hothorn on 04 October 2011, 00:00:00 UTC
version 1.0-20
version 1.0-20
Tip revision: 0289f99
NEWS
CHANGES in `coin' VERSION 1.0-20
o report a warning for rank tests with weights
CHANGES in `coin' VERSION 1.0-19
o no require() in .onLoad()
CHANGES in `coin' VERSION 1.0-18
o exact() can not work for symmetry_test; spotted
by LE PAPE Gilles <lepape.gilles@neuf.fr>
CHANGES in `coin' VERSION 1.0-17
o add dependencies required for tests/
CHANGES in `coin' VERSION 1.0-16
o change `ties.method = c("HollanderWolfe", "Pratt")'
to `zero.method = c("Pratt", "Wilcoxon")' in `wilcoxsign_test'
following a suggestion by Fritz Scholz. A warning
is fired to avoid misleading and nonreproducible results.
CHANGES in `coin' VERSION 1.0-15
o use `quantile(..., type = 1)' for computing approximate
quantiles (suggested by Fritz Scholz)
CHANGES in `coin' VERSION 1.0-14
o documentation Biobase:expressionSet
CHANGES in `coin' VERSION 1.0-13
o further checks and better error messages
for nonsense data in (paired) two-sample
tests
CHANGES in `coin' VERSION 1.0-12
o better error message for
wilcoxsign_test(c(1, 1, 1) ~ c(1, 1, 1))
CHANGES in `coin' VERSION 1.0-11
o bugfix in discrete MTP adjustment
CHANGES in `coin' VERSION 1.0-10
o improve upon `qperm' for van de Wiel algorithm again.
CHANGES in `coin' VERSION 1.0-9
o again precision problems in van de Wiel algorithm:
`qperm' suffered from too large tolerances of the
inverted probability function.
CHANGES in `coin' VERSION 1.0-8
o precision problems in van de Wiel algorithm
fixed. In rare cases, P(T < t) was returned
as p-value instead of P(T <= t). Two statistics
are now considered equal (in all computations)
when the difference is smaller than
sqrt(.Machine$double.eps)
CHANGES in `coin' VERSION 1.0-7
o dperm, pperm and qperm are vectorized also
for exact and approximate null distributions
CHANGES in `coin' VERSION 1.0-6
o exact distribution for independent two-sample
problems with only two observations was wrong,
spotted by Fritz Scholz <fscholz@u.washington.edu>
CHANGES in `coin' VERSION 1.0-5
o documentation updates
CHANGES in `coin' VERSION 1.0-4
o evaluate all formulae in xxx_test's parent.frame
CHANGES in `coin' VERSION 1.0-3
o add alternative ties handling to wilcoxsign_test
feature request by Fritz Scholz <fscholz@u.washington.edu>
o vignette update
CHANGES in `coin' VERSION 1.0-2
o fix location confidence interval problem
spotted by Fritz Scholz <fscholz@u.washington.edu>
CHANGES in `coin' VERSION 1.0-1
o add average scores for logrank test
o fix Rd problems
CHANGES in `coin' VERSION 1.0-0
o JSS paper http://www.jstatsoft.org/v28/i08/
documents version 1.0-0
o set default for <IndependenceTest>@method to
"General Independence Test"
o covariance() always returns a covariance matrix
o add show() method for <IndependenceTest> objects
o functions supplied via `distribution = ' doesn't need
to have a class
o export all classes
o compute linear statistics, expectations and (co)variances
when constructing <IndependenceLinearStatistic> instead
of <IndependenceTestStatistic> and define methods for this class.
o maxstat_test() with integer weights gave NA or wrong cutpoints
CHANGES in `coin' VERSION 0.6-9
o any() was misused in one place, spotted by
Kasper Daniel Hansen <khansen@stat.Berkeley.EDU>
CHANGES in `coin' VERSION 0.6-8
o code cosmetics by Johannes Huesing <johannes@huesing.name>
CHANGES in `coin' VERSION 0.6-7
o remove non_function entries from Rd files
o disable Biobase example in vignette
CHANGES in `coin' VERSION 0.6-6
o fix precision problems with exact p-values (spotted by
Michael Fay <mfay@niaid.nih.gov>
CHANGES in `coin' VERSION 0.6-5
o add new vignette on technical details; update to new mvtnorm 0.8-0
o update to new mvtnorm 0.8-0
o check for overflow errors in StreitbergRoehmel.c
(thanks for Michael Fay <mfay@niaid.nih.gov> for spotting this)
CHANGES in `coin' VERSION 0.6-4
o add new argument `ordered_trafo' to `trafo'
and deal with ordered factors in a more transparent
way (via a new function `of_trafo')
CHANGES in `coin' VERSION 0.6-3
o new vignette `MAXtest'
CHANGES in `coin' VERSION 0.6-2
o print name of `x' variable and levels when `x' is a factor
o new class IndependenceLinearStatistic
CHANGES in `coin' VERSION 0.6-1
o LazyLoad: yes
CHANGES in `coin' VERSION 0.6-0
o rename some C source files & update doxygen documentation
o simplify some methods and the class structure
o clean up code and simplify wrapper functions
o documentation updates
o deal with factors containing only one level
o don't compute design matrices in `ModelEnvFormula'
o expand weights if distribution = approximate()
o assign names to user-specified transformation in case they are
missing
o the `distribution' argument may now be a function with one
argument allowing for user-specified distributions.
o surv_test() ignored the `alternative' argument
CHANGES in `coin' VERSION 0.5-2
o maxstat_trafo did not always choose the correct maximal
cutpoint
o formula evaluation without `data' argument was partially broken
(thanks to Achim for spotting this)
CHANGES in `coin' VERSION 0.5-1
o improve formula interface for wilcoxsign_test
CHANGES in `coin' VERSION 0.5-0
o implement exact distribution for symmetry problems (especially
wilcoxsign_test)
o add more checks on StatXact examples
CHANGES in `coin' VERSION 0.4-14
o fix problems reported by valgrind
CHANGES in `coin' VERSION 0.4-13
o coin-Ex.R generated by R-2.4.0
o Enhances: Biobase
CHANGES in `coin' VERSION 0.4-12
o add $(FLIBS) to Makevars
CHANGES in `coin' VERSION 0.4-11
o include doxygen documentation for C functions
o documentation updates
CHANGES in `coin' VERSION 0.4-10
o maxstat_test(y ~ x) is now able to deal with unordered x variables
o maxstat_test returns estimates of both the selected variable and the
cutpoint in multivariate situations (as a list)
o more checks for maxstat_test
o add codetools checks to tests
CHANGES in `coin' VERSION 0.4-9
o fix typo: Homegeneity
o add ASA copyright to `LegoCondInf' vignette
CHANGES in `coin' VERSION 0.4-8
o clarify that the Stuart-Maxwell test is computed by mh_test and add
a further example (thanks to Henric Nilsson <henric.nilsson@phadia.com>
for pointing this out!).
CHANGES in `coin' VERSION 0.4-7
o improve `maxstat_trafo': some potential cutpoints could have been
overlooked in case of ties equal to the maxprob and minprob sample
quantiles.
o reproduce two examples from Hothorn and Lausen (2003) in
?maxstat_test (and added `hohnloser' data set)
o add more regression tests on `maxstat_test'
CHANGES in `coin' VERSION 0.4-6
o updated `LegoCondInf' vignette
o printed names of test statistics are now
`chi-squared', `maxT', or `Z' instead of `T'
CHANGES in `coin' VERSION 0.4-5
o user-supplied transformations can return a vector which
is coerced to matrix(..., ncol = 1) internally
o `ytrafo' and `xtrafo' may take functions like `rank' directly.
However, the use of `trafo' is recommended.
o argument `teststat' may take values "max", "quad" or "scalar"
o internal reimplementation of score handling for ordered factors
o handling of multiple ordered factors / ordered factors in
multivariate sitations implemented
CHANGES in `coin' VERSION 0.4-4
o f_trafo returns a design matrix with NA rows in case missing values
were present
CHANGES in `coin' VERSION 0.4-4
o make R CMD check happy and move src/README to inst/README
CHANGES in `coin' VERSION 0.4-3
o isequal must not check equality of attributes
CHANGES in `coin' VERSION 0.4-2
o new data set `alpha'
o data set `alzheimer' is now a data.frame, not a table
o new vignette with more applications
CHANGES in `coin' VERSION 0.4-1
o documentation updates
o remove unused setAs definitions
o expectation(), variance() and covariance() return
named vectors or matrices. Names for objects returned
by statistic() have been partially improved.
o all observations with NA's are removed now
o some internal improvements (removed unused code, avoid duplicated
code chunks etc.)
o more checks on NA's, blocks and multiple ordinal variables (one
univariate problems are currently allowed to have ordinal
variables)
CHANGES in `coin' VERSION 0.3-8
o export `independence_test.table'
o add `conf.level' attribute for `MCp' objects when quasi-randomized
Monte-Carlo procedures (from `mvtnorm') have been used
o add new `var_trafo' argument to `trafo'
o documentation updates
CHANGES in `coin' VERSION 0.3-7
o `statistic()' now returns correct linear and standardized
statistics when scores are in play
o `alzheimer' data added
o `photocar' data added
o documentation updates
o `support()' and `dperm()' methods have been improved for asymptotic and
approximate null distributions
CHANGES in `coin' VERSION 0.3-6
o internal C function `R_MonteCarloIndependenceTest' returns
a (pq x B) matrix instead of a list with B elements
(the linear statistic for each random permutation of the data)
o various simplifications for the computations of adjusted p-values
o I() in formulae could still cause trouble with class `AsIs', now
fixed.
o logical variables are now allowed in formulae
(and are treated like factors)
CHANGES in `coin' VERSION 0.3-5
o fix print method for marginal homogeneity tests
(...stratified by block...)
o R_kronecker in C now available
o C versions of nrow and ncol return 1 or length for vectors
o some internal optimisation
CHANGES IN `coin' VERSION 0.3-4
o C functions `nrow(x)' and `ncol(x)' return LENGTH(x) or 1 when
x has no dim attribute
o new R-interface function `R_kronecker' to `C_kronecker' (which
returns a _vector_!)
o speedup of variance computations in internal functions
CHANGES IN `coin' VERSION 0.3-3
o fix more problems reported by new `codetools'. Try to work around
the `terms(y ~ ., data = data.frame(1:10))' problem in R-2.2.0.
CHANGES IN `coin' VERSION 0.3-2
o fix some problems reported by `codetools'
CHANGES IN `coin' VERSION 0.3-1
o alternative = "less" and alternative = "greater" are now defined
for maxtype statistics as well
o one- and two-sided single-step and step-down maxT p-value
adjustments are now available from the appropriate
`pvalue' method (NOTE: those procedures have not been tested
carefully, yet)
In addition, the Bonferroni-adjustment by Westfall & Wolfinger
(1997) is available now. Note that the interface to `pvalue'
changed slightly, `adjustment = TRUE' was replaced by
`method = "single-step"'.
o more examples added to the vignette.
CHANGES IN `coin' VERSION 0.2-14
o distribution = "approximate" for maxtype statistics was wrong
in case both xtrafo _and_ ytrafo were multivariate (the conditional
expectation was computed incorrectly)
CHANGES IN `coin' VERSION 0.2-13
o I() in formulae returns objects of class `AsIs' which caused
troubles in `trafo'
CHANGES IN `coin' VERSION 0.2-12
o functionality for formula parsing and evaluation is now imported
from package `modeltools'
o `show()' returns objects (of class `htest', for example) invisibly,
really.
o `maxstat_trafo' is much faster now and returns a matrix with
both row- and column names set appropriately
CHANGES IN `coin' VERSION 0.2-11
o the `distribution' argument now takes the return values of
functions `exact()', `approximate()' or `asymptotic()' as well.
Those functions can be used to specify parameters, such as the
number of Monte-Carlo replications via
..., distribution = approximate(B = 9999), ...
o `show()' returns objects (of class `htest', for example) invisibly
o `expectation()' returns a vector, not a matrix
o new generic `variance()' for extracting the variance(s) of
linear statistics
o only variances (instead of the whole covariance matrix) is
computed when the distribution of maximum type test statistics
is to be _approximated_.
o `data' may be an object of class `exprSet' (-> Biobase), the
vignette has an example
o `logrank_trafo' (and `surv_test') now have a `ties.method' argument,
see ?surv_test for more information
CHANGES IN `coin' VERSION 0.2-10
o asymptotical -> asymptotic in print methods
o `mercuryfish' example added
o {x,y}trafo now can return matrices with number of columns
different from the lhs and rhs of `formula'
CHANGES IN `coin' VERSION 0.2-9
o `mergesort' is already defined in `/usr/include/stdlib.h:270' on
some platforms.
o `delay' is deprecated in R 2.1.0
