NEWS
Version 2.4.5-3
2018-12-04
1. Updated simulate_tables() function to be more accurate when
generating small tables where row and column variables are
independent. Specifically, zero counts are now allowed.
2. Updated tests for simulate_tables() in test_simulate.R.
3. Introduced simulate_independent_tables() by reorganizing
preivous code. Noise is now applied along both rows and columns
(previously only along the rows). The funciton is in
simulate_tables.R.
4. Modified prelim.check() in simulate_tables.R.
5. Updated manual page for simulate_tables() accordingly.
6. Updated the examples in the manual of plot_tables().
2018-11-01
1. Added an argument in plot_table() to highlight row maxima with
a box.
2018-10-24
1. Created version 2.4.5-3.
2. Made "conditional function index" the default, previously
"unconditional", in fun.chisq.test(). Specifically, set the
default value of index.kind to "conditional". Previous "conditional
function index", specified by index.kind="conditional", is now
called "function index"; previous "function index", specified by
index.kind="unconditional" is now called "unconditional function
index". The "unconditional" option for function index will phase
out in future versions of the function.
3. Added a new vignette "Examples of discrete patterns".
4. Updated vignettes to include table visualization by
plot_table() function.
Version 2.4.5-2
2018-10-22
1. Reintroduced a test source code file test_FunChisq.R back,
which was accidentally deleted from the previous version.
2018-10-17
1. Added a plot_table() function to visualize a contingency table.
2018-10-16
1. Created version 2.4.5-2.
2. Included conditional FunChisq R code.
Version 2.4.5-1
2018-06-16
1. In the exact functional test C++ code, improved the numerical
precision of the FunChisq statistic using an equivalent
mathematical form already used in the R version. This fixed bugs
in the exact functional test when the table is of certain
dimension and sample size.
2. Added a few more test cases for the exact functional test.
3. Increased the maximum table size from 5x5 to 10x10 for the
exact functional test.
4. Added a warning message when asymptotic test is used in place
of the exact test to avoid long computational time.
5. Updated the DOI of the reference to exact functional test.
Version 2.4.5
2018-02-08
1. Added a parameter "exact.mode.bound" in the fun.chisq.test()
function to switch ON/OFF the fast branch-and-bound algorithm in
the exact functional test.
2. Updated testthat cases for exact functional test.
Version 2.4.4
2018-02-05
1. Added a new reference (Zhong and Song, 2018) for exact
functional test.
2. Changed the package title to "Chi-Square and Exact Tests for
Model-Free Functional Dependency"
2017-10-26
1. Included a reference for the simulate_tables() function that
describes the strategies used by the function.
2017-06-11
1. Updated the functional indices to be more accurate when the
number of row is less than the number of columns and also
when conditioned on the column sum.
2017-05-29
1. Added "simulate.p.value" method option in fun.chisq.test()
to calculate p-value with Monte carlo simulated distribution.
2017-05-16
1. Updated the vignette for choosing quantities for functional
dependencies.
2017-05-05
1. Fixed a bug in simulating 'discontinuous' contingency tables
when the number of column is two.
2. Updated manuals.
Version 2.4.3
2017-04-27
1. Fixed a bug in specifying the margin to apply noise in
simulate_tables().
2. Added a noise.model parameter in simulate_tables() to
specify either the "house" or "candle" noise model for applying
noise to contingency tables representing ordinal or categorical
data.
2017-04-25
1. Revised package description and manuals.
Version 2.4.2
2017-04-20
1. Renamed pattern type "nonmonotonic" to "many.to.one" in
simulate_tables(). The latter is mathematically correct.
2. Added a "discontinuous" pattern type in simulate_tables().
3. Added a new candle noise model for categorical variables.
4. Sped up add.noise function code by taking advantage of
vectorized multinomial distribution R function.
Version 2.4.1
2017-04-02
1. Revised the manual for function simulate_tables()
2017-02-28
1. Suppressed warning messages when calling chisq.test() to
compute chi-squares in function simulate_tables().
2. Edited the manual for simulate_tables().
3. Edited other manuals for improved consistency with R package
reference format.
Version 2.4.0
2017-02-26
Changes
1. Added a new R function simulate_tables() with supporting test functions.
2. Added a new R function add.house.noise() with supporting test functions.
3. Introduced the use of 'R_registerRoutines' and 'R_useDynamicSymbols'.
Version 2.3.4
Changes
2016-10-01
1. Added keywords to the package manual.
Version 2.3.3
Changes
2016-09-02
1. Updated the vignettes.
Version 2.3.2
Changes
2016-08-29
1. Updated the reference section to fix the year of Pearson's chi-square test
paper which was published in 1900 not 1990.
2016-05-03
1. Now check all options for the method argument so that only valid
methods are allowed.
Version 2.3.1
Changes
2016-05-01
1. Expanded test.interactions() to test many-to-one combinatorial
interactions in C++ via Rcpp.
Version 2.3.0 (not deposited to CRAN)
Changes
2016-04-30
1. Data frame input is now converted to numeric matrix before exact
functional test.
2. Added function test.interactions() to test pairwise (one-to-one)
interactions, implemented in C++ via Rcpp for computational efficiency.
Version 2.2.4
Changes
2016-04-21
1. Added vignette "Which statistic to use for functional dependency
from fun.chisq.test()?"
2. Updated references and description.
Version 2.2.3
Changes
2016-03-31
1. Use [[Rcpp::export]] to automatically generate R interface.
2016-03-15
1. Revised the code to remove dependency on RcppClassic.
2016-03-12
1. Revised help documentation and included new references.
Version 2.2.2
Changes
2016-02-07
1. Handled a special case for the normalized FunChisq when the degrees of
freedom are zero.
2016-02-05
1. Renamed the "type" argument to "alternative" in fun.chisq.test().
2. Revised values of the "method" argument in fun.chisq.test(). Previous
values ("default" and "normalized") are still supported but obsolete.
3. Added the "log.p" argument in both cp.fun.chisq.test() and cp.chisq.test().
4. Updated the documentation.
2016-01-30
1. Added a new argument "index.kind" to fun.chisq.test() to specify
the function index kind: "unconditional" or "conditional" on a given
marginal of Y.
2016-01-26
1. Fixed a bug in cp.chisq.test().
Version 2.2.1
Changes
2016-01-25
1. Fixed a bug introduced in the previous version.
2. Updated package description to be more reflective of recent additions.
3. Included missing references.
Version 2.2.0
Changes
2016-01-23
1. Improved code efficiency for fun.chisq.test().
2. Now fun.chisq.test() returns an estimate of function index between
0 and 1, in analogy to Cramer's V, but asymmetrical.
3. Added additional test examples for fun.chisq.test().
2016-01-22
1. Added type argument to fun.chisq.test() to specify functional or
non-constant functional chi-squares.
2. Added log.p argument to fun.chisq.test() to obtain log of p-value
to improve accuracy when sample size is large and p-value is close
to zero.
2015-07-03 (Unpublished version 2.1.1 )
1. Added cp.chisq.test() for comparative chi-square test, not considering
functional dependencies.
2. Added test examples for cp.chisq.test().
Version 2.1.0 2015-06-29
Changes
1. Substantially reduced the run time of exact functional test by designing a
better branch and bound strategy.
2. Enabled C++11 compling by adding two files (Makevars and Makevars.win).
3. Fixed a bug occured under WIN32 using long double by adding define.h to
specify double precision for WIN32 and long double precision for WIN64.
4. Increased float comparison precision by considering a tolerance.
5. Imported pnorm() and pchisq() from the "stats" package.
Version 2.0.2 2015-03-03
Changes
1. Updated documentation for the package and its functions.
2. Fixed a testing issue under r-release-linux-ix86 flavor.
Version 2.0.1 2015-02-23
Changes
1. Removed assert() function from StatDistribution.cpp.
2. Removed Makevar and Makevar.win files.
3. Removed all iostream and sstream and cassert.
4. Removed TransitionTableIO.cpp.
5. In the testthat examples, signif(x,8) is used to compare 8 significant
digits of the results.
6. Added a normalized functional chi-square test example.
Version 2.0.0 2015-02-12
Changes
1. Added a new exact functional test as a method option to fun.chisq.test().
The exact functional test is an exact version of FunChisq test, it is
more precise to detect functional dependencies in small sample-sized
contingency tables.
2. Added a new comparative functional chi-square test for detecting
heterogeneity in functional dependencies among contingency tables.
3. Revised the examples and documentation to improve usability.
4. Added automated test cases into the package.
5. Started the NEWS file.
Version 1.0 2014-03-08
Changes
1. The first release of this package implements the functional chi-square
test and a normalized version.