debian/0000755000000000000000000000000012146160527007172 5ustar debian/watch0000644000000000000000000000011311133420136010204 0ustar version=3 http://cran.r-project.org/src/contrib/ROCR_([-0-9\.]*)\.tar\.gz debian/compat0000644000000000000000000000000211650264735010375 0ustar 8 debian/docs0000644000000000000000000000003311650436116010040 0ustar README.unittests unittests debian/changelog0000644000000000000000000000706612146160500011044 0ustar r-cran-rocr (1.0-5-1) unstable; urgency=low * New upstream release [Dirk Eddelbuettel] * Adding myself to uploaders -- Dirk Eddelbuettel Sun, 19 May 2013 09:25:22 -0500 r-cran-rocr (1.0-4-4) unstable; urgency=low [Dirk Eddelbuettel] * NAMESPACE: Added with single line 'exportPattern("^[[:alpha:]]+")' as R now requires a NAMESPACE file to be present * debian/control: Set Build-Depends: to current R version * debian/control: Set Standards-Version: to current version * (Re-)building with R 3.0.0 [Andreas Tille] * debian/upstream - Remove wrong '|' after Reference field - Moved DOI and PMID to Reference -- Andreas Tille Wed, 07 Mar 2012 16:42:30 +0100 r-cran-rocr (1.0-4-3) unstable; urgency=low * Support depending on R pre-releases (debian/rules, Closes: #646157). * Machine-readable debian/copyright, format 1.0 (DEP 5). * Distribute unit tests (debian/docs). * Expanded and moved instructions to test the binary package from debian/README.Debian to debian/README.test. -- Charles Plessy Sat, 22 Oct 2011 12:56:28 +0900 r-cran-rocr (1.0-4-2) unstable; urgency=low * Rebuild using latest R Closes: #646044 * Standards-Version: 3.9.2 (no changes needed) * Debhelper 8 (control+compat) * Fixed Vcs fields * debian/source/format: 3.0 (quilt) * README.Debian: describe how the package was testet * debian/control: Suggests: r-cran-runit (because it is described in upstream's README.unittests) * debian/docs: Install information about unittests -- Andreas Tille Fri, 21 Oct 2011 14:29:10 +0200 r-cran-rocr (1.0-4-1) unstable; urgency=low * New upstream release. * Incremented Standards-Version (debian/control) to reflect compliance with Policy 3.8.4. * Require a number equal or superior than the R version the package was built with, using a R:Depends substvar (debian/control, debian/rules). * Added notes to explain how this package is tested (debian/README.Debian). -- Charles Plessy Wed, 03 Feb 2010 12:59:59 +0900 r-cran-rocr (1.0-3-3) unstable; urgency=low * New upstream version. * Explicitly setting dependency to latest R because of the new R help system. -- Steffen Moeller Sat, 24 Oct 2009 17:04:38 +0900 r-cran-rocr (1.0-2-2) unstable; urgency=low * Rebuilt against R 2.10.0 because of changes in the documentation system. * Converted debian/copyright to experimental machine-readable format. * Updated to Policy 3.8.3: - Changed section to gnu-r (debian/control). - Incremented Standards-Version (debian/control). * Switched to Debhelper 7 (debian/control, debian/compat). * Removed ${shlibs:Depends} and added ${misc:Depends} (debian/compat). * Added VCS archive metadata (debian/control). * Documented various upstream information in debian/upstream-metadata.yaml * Added myself to the uploaders (debian/control). -- Charles Plessy Sat, 24 Oct 2009 17:04:38 +0900 r-cran-rocr (1.0-2-1.1) unstable; urgency=low * Non-maintainer upload * debian/watch: Corrected as this is in fact case-sensitive * debian/control: Removed myself from uploaders as - Steffen never asked me whether I wanted to be included - Steffen never removed me despite repeated requests to do so -- Dirk Eddelbuettel Sat, 29 Nov 2008 13:13:47 -0600 r-cran-rocr (1.0-2-1) unstable; urgency=low * Initial release (closes: #492524). -- Steffen Moeller Sun, 27 Jul 2008 00:34:06 +0200 debian/rules0000755000000000000000000000053511650442772010261 0ustar #!/usr/bin/make -f include /usr/share/R/debian/r-cran.mk # Require a number equal or superior than the R version the package was built with. install/r-$(debRreposname)-$(cranName):: echo "R:Depends=r-base-core (>= $(shell R --version | head -n1 | perl -ne 'print / +([0-9]\.[0-9]+\.[0-9])/')~)" >> debian/r-$(debRreposname)-$(cranName).substvars debian/source/0000755000000000000000000000000012133503100010452 5ustar debian/source/format0000644000000000000000000000001411650265114011675 0ustar 3.0 (quilt) debian/README.test0000644000000000000000000000076011650436116011032 0ustar Notes on how this package can be tested. ──────────────────────────────────────── This package can be tested by loading it into R with the command ‘library(rocr)’ in order to confirm its integrity. Material for more extensive tests is available in /usr/share/doc/r-cran-rocr/README.unittests and /usr/share/doc/r-cran-rocr/unittests -- Andreas Tille Tue, 18 Oct 2011 19:46:07 +0200 debian/copyright0000644000000000000000000000314011764753271011134 0ustar Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Source: http://cran.r-project.org/src/contrib/ROCR_1.0-4.tar.gz Comment: The package was renamed from its upstream name ‘ROCR’ to ‘r-cran-rocr’ to highlight the fact that is it a package for R within the CRAN archive and the policy to use lower case characters for package names. Files: * Copyright: © 2005-7 Tobias Sing, Oliver Sander, Niko Beerenwinkel and Thomas Lengauer. License: GPL-2+ This is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. . This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. . You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA. Comment: Limited warranty. These datasets and software are provided in good faith, but none of the authors, publishers nor distributors warrant their accuracy nor can be held responsible for the consequences of their use. . On a Debian GNU/Linux system, the GNU General Public License version 2 is included in the file ‘/usr/share/common-licenses/GPL-2’. Files: debian/* Copyright: © 2008 Steffen Moeller License: same same as ROCR debian/patches/0000755000000000000000000000000012146160673010623 5ustar debian/patches/series0000644000000000000000000000000112146160664012027 0ustar debian/patches/namespace.patch0000644000000000000000000000053512133504611013571 0ustar Description: R 3.0.0 requires a NAMESPACE file in the top-level, this upstream package currently does not have one. The simple default export is fine. Reviewed-By: Dirk Eddelbuettel Last-Update: <2013-04-14> --- /dev/null +++ r-cran-rocr-1.0-4/NAMESPACE @@ -0,0 +1 @@ +exportPattern("^[[:alpha:]]+") debian/control0000644000000000000000000000571612146160500010575 0ustar Source: r-cran-rocr Section: gnu-r Priority: optional Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Charles Plessy , Andreas Tille , Dirk Eddelbuettel Build-Depends: debhelper (>= 8), cdbs, r-base-dev (>= 3.0.0), r-cran-gplots, r-cran-gtools, r-cran-gdata Standards-Version: 3.9.4 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-cran-rocr/trunk/ Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/R/r-cran-rocr/trunk/ Homepage: http://rocr.bioinf.mpi-sb.mpg.de Package: r-cran-rocr Architecture: all Depends: ${misc:Depends}, ${R:Depends}, r-cran-gplots, r-cran-gtools, r-cran-gdata Suggests: r-cran-runit Description: GNU R package to prepare and display ROC curves ROC graphs, sensitivity/specificity curves, lift charts, and precision/recall plots are popular examples of trade-off visualizations for specific pairs of performance measures. ROCR is a flexible tool for creating cutoff-parametrized 2D performance curves by freely combining two from over 25 performance measures (new performance measures can be added using a standard interface). Curves from different cross-validation or bootstrapping runs can be averaged by different methods, and standard deviations, standard errors or box plots can be used to visualize the variability across the runs. The parametrization can be visualized by printing cutoff values at the corresponding curve positions, or by coloring the curve according to cutoff. All components of a performance plot can be quickly adjusted using a flexible parameter dispatching mechanism. Despite its flexibility, ROCR is easy to use, with only three commands and reasonable default values for all optional parameters. . ROCR features: ROC curves, precision/recall plots, lift charts, cost curves, custom curves by freely selecting one performance measure for the x axis and one for the y axis, handling of data from cross-validation or bootstrapping, curve averaging (vertically, horizontally, or by threshold), standard error bars, box plots, curves that are color-coded by cutoff, printing threshold values on the curve, tight integration with Rs plotting facilities (making it easy to adjust plots or to combine multiple plots), fully customizable, easy to use (only 3 commands). . Performance measures that ROCR knows: Accuracy, error rate, true positive rate, false positive rate, true negative rate, false negative rate, sensitivity, specificity, recall, positive predictive value, negative predictive value, precision, fallout, miss, phi correlation coefficient, Matthews correlation coefficient, mutual information, chi square statistic, odds ratio, lift value, precision/recall F measure, ROC convex hull, area under the ROC curve, precision/recall break-even point, calibration error, mean cross-entropy, root mean squared error, SAR measure, expected cost, explicit cost. debian/upstream0000644000000000000000000000146411725701613010761 0ustar Contact: - Tobias Sing - Oliver Sander Gallery: http://rocr.bioinf.mpi-sb.mpg.de/rocr_gallery.html Homepage: http://rocr.bioinf.mpi-sb.mpg.de Name: ROCR Reference: author: Sing, Tobias and Sander, Oliver and Beerenwinkel, Niko and Lengauer, Thomas title: "ROCR: visualizing classifier performance in R" journal: Bioinformatics volume: 21 number: 20 pages: 3940-3941 year: 2005 PMID: 16096348 DOI: 10.1093/bioinformatics/bti623 URL: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/21/20/3940 eprint: http://bioinformatics.oxfordjournals.org/cgi/reprint/21/20/3940.pdf Screenshot: - http://rocr.bioinf.mpi-sb.mpg.de/plot1.jpg - http://rocr.bioinf.mpi-sb.mpg.de/plot.jpg Watch: http://cran.r-project.org/src/contrib/ROCR_([-0-9\.]*)\.tar\.gz