1.10.0 (2017-06-10) * Basic ggplot2 support (one and multiple ROC curves) * Implement 'precision' and 'recall' for 'coords' * Fix: properly handle NAs in cases when passing cases/controls to 'roc' (thanks Thomas König for the report) * Fix various minor bugs detected with new unit tests 1.9.1 (2017-02-05) * Fix: 'subset' and 'na.action' arguments now handled properly in 'roc.formula' (thanks Terry Therneau for the report) * Added policies to handle the case where a ROC curve has multiple "best" threshold in 'ci' (thanks Nicola Toschi for the report) * Support 'xlim' and 'ylim' gracefully in 'plot.roc' * Improved validation of input class 'levels' and 'direction'; messages when auto-detecting, use 'quiet' to turn on * Removed extraneous 'name' attribute on the 'p.value' (thanks Paweł Kleka for the report) * Faster DeLong algorithm (code contributed Stefan Siegert) 1.8 (2015-05-04) * NAMESPACE now properly exports the methods as S3 methods. * Now uses and works with 'requireNamespace' * Add ability to supply two ordered factors with identical levels as control / cases * Deprecate dangerous use of a matrix as response / predictor with a warning * Forward 'best.method' and 'best.weights' arguments to 'coords' in 'ci.thresholds' * Fix CITATION file as per CRAN request * pAUC correction is undefined for partial AUC below the diagonal (result < 0.5) and now returns NA (with a warning). Thanks Vincenzo Lagani for the report. 1.7.3 (2014-06-14) * Fixed AUC of binomial-smoothed ROC off by 100^2 (thanks Bao-Li Chang for the report) * Fix print of logcondens-smoothed ROC 1.7.2 (2014-04-05) * Fixed bug where 'ci.coords' with 'x="best"' would fail if one or more resampled ROC curve had multiple "best" thresholds * Fixed bug in 'ci.coords': passing more than one value in 'x' now works * Fixed typo in documentation of 'direction' argument to 'roc' (thanks Le Kang for the report) * Add a warning when computing statistics of ROC curve with AUC = 1 * Require latest version of Rcpp to avoid weird errors (thanks Tom Liptrot for the report) 1.7.1 (2014-02-20) * Close SOCK cluster on Windows with parallel=TRUE * Fixed really use algorithm 1 when microbenchmark fails 1.7 (2014-02-19) * Faster algorithm for DeLong 'roc.test', 'power.roc.test', 'ci.auc', 'var' and 'cov' function (no large matrix allocation) * Handling Math and Operations correctly on 'auc' and 'ci' objects (see '?groupGeneric.pROC') * The 'formula' for 'roc.formula' can now provide several predictors and a list of ROC curves will be returned * Fixed documentation of 'ci.coords' with examples * Fixed binormal AUC computed with triangulation despite the claim in the documentation * Fixed unstated requirement on Rcpp >= 0.10.5 1.6.0.1 (2013-12-28) * Removed erroneous error message displayed when predictors and responses were not vectors 1.6 (2013-12-26) * New 'power.roc.test' function for sample size and power computations * New 'cov' and 'var' functions supports new "obuchowski" method * New 'ci.coords' function to compute CI of arbitrary coords * 'coords' accepts new 'ret' value "1-accuracy" * Introducing various algorithms to compute sensitivities and specificites, with a more vectorized code or Rcpp. See 'algorithm' in ?roc for more details on the trade-offs of the different methods. * Faster algorithm for DeLong 'roc.test', 'ci', 'var' and 'cov' function (thanks Kazuki Yoshida). * 'are.paired' now also checks for identical 'levels' * Fixed a warning generated in the examples * Fixed several bugs related with 'smooth.roc' curves * Additional input data sanity checks * Now requires R >= 2.13 (in fact, since 1.5.1, thanks Emmanuel Curis for the report) * Progress bars now defaults to text on Macs where 'tcltk' seems broken (thanks Gerard Smits for the report) 1.5.4 (2012-08-31) * Running less smooth.roc examples with logcondens because they take too much time (requested by Uwe Ligges) 1.5.3 (2012-08-31) * AUC specification was lost when roc.test, cov or var was passed an 'auc' object. * Correct computation of "accuracy" in 'coords' (thanks to Kosuke Yoshihara for the report) 1.5.1 (2012-03-09) * Faster loading of the package (thanks to Prof Brian Ripley and Glenn Lawyer for the report) 1.5 (2011-12-11) * New 'cov' and 'var' functions * 'coords' accepts new 'ret' values: "accuracy", "tn", "tp", "fn", "fp", "npv", "ppv", "1-specificity", "1-sensitivity", "1-npv", "1-ppv", "npe" and "ppe" * New 'legacy.axes' argument to 'plot' 1-specificity rather than specificity * New 'axes' argument to turn off the plotting of the axis * New 'logcondens' and 'logcondens.smooth' (Univariate Log-Concave Density Estimation) smoothing methods * New function 'has.partial.auc' to determine if an AUC is full or partial * New argument 'drop' for 'coords' * 'auc' and 'multiclass.auc' objects now also have secondary class 'numeric' * Updated load call * Delong's CI reversed in ROC curves with direction=">" * Delong's CI AUC returned values > 1 or < 0 in some rare cases * Minor improvements in documentation 1.4.4 (2011-08-09) * Fixed alternative for one-tailed tests (thanks to Lisa Koch for the report) * Removed COPYING file to fix a warning in r-devel. 1.4.3 (2011-03-17) * Updated citation 1.4.2 (2011-03-03) * Fixed bootstrap 'roc.test' generating NAs when 'smooth.roc's were used with 'reuse.auc=FALSE' (thanks to Buddy for the report) * Documented a warning that was missing in roc.test * Updated citation 1.4.1 (2011-01-27) * 'venkatraman''s test for unpaired ROC curves 1.4 (2011-01-21) * 'smooth' does not apply on 'ordered' factors anymore * Multi-class AUC support * Can choose how 'best' thresold is determined ('best.method' and 'best.weights' in 'coords' and 'print.thres.best.method' and 'print.thres.best.weights' in 'plot.roc') * Minor fixes in documentation * 'print' now prints the response instead of "response" and more informative data in 'htest's * Bootstrap with 'ci.auc' consumes much less memory * Unpaired bootstrap and DeLong's test * Specificity and sensitivity tests (in 'roc.test') 1.3.2 (2010-08-24) * 'print.auc' printed incorrect CI in 'plot.roc' (thanks to Alexander B. Leichtle for the report) * Failed to detect local maximas in 'coords' when 2 or less points were selected * Don't consider ROC extremities (+-Inf at 1.0/0.0 SE<->SP) as local maximas 1.3.1 (2010-08-18) * Sensitivity and specificity were inverted in coords when results were reported as list * Faster checks with '\dontrun{}' in 'roc.test' 1.3 (2010-08-13) * '...' not passed correctly in 'plot.ci.se' with 'type="bars"' resulting in an error * CI is not re-computed by default in 'smooth.roc'. You can still turn it on with 'reuse.ci=TRUE' * New function 'are.paired' * Local maximas could be incorrectly detected in 'coords' (and 'plot.roc') with 'predictor's containing more than 2 levels. * New method 'venkatraman' for 'roc.test' * MASS and tcltk packages are now only suggested instead of required 1.2.1 (2010-05-11) * Handle 'method' arguments for 'smooth.roc' and 'ci.auc' separately in 'roc.default' * Added 'auc.polygon.*' and 'max.auc.polygon.*' arguments for 'polygon' in 'plot.roc' 1.2 (2010-05-09) * Added DeLong method in 'ci.auc' * Return value of 'ci.auc' does not contain an 'aucs' item anymore * Put most examples with bootstrap within '\dontrun{}' blocks for faster (but less useful) checks execution 1.1 (2010-05-05) * Added 'lines.roc' functions for ROC * Added 'type' argument for both 'lines.roc' and 'plot.roc' * Added 'print.auc.col' argument to 'plot.roc' * Fixed a warning in 'roc.test.default' when the class of 'predictor1' had several elements * Fixed an encoding failure during the checks on MacOS X 1.0.1 (2010-04-28) * Reduced examples execution time. Added low 'boot.n' in the slowest examples and 'reuse.auc' and 'reuse.ci' arguments in smooth.roc.roc 1.0 (2010-04-27) * First public release