pROC: an open-source package for R and S+ to analyze and compare ROC curves
Xavier Robin,Natacha Turck,Alexandre Hainard,Natalia Tiberti,Frédérique Lisacek,Jean-Charles Sanchez,Markus Müller +6 more
TLDR
pROC as mentioned in this paper is a package for R and S+ that contains a set of tools displaying, analyzing, smoothing and comparing ROC curves in a user-friendly, object-oriented and flexible interface.Abstract:
Receiver operating characteristic (ROC) curves are useful tools to evaluate classifiers in biomedical and bioinformatics applications. However, conclusions are often reached through inconsistent use or insufficient statistical analysis. To support researchers in their ROC curves analysis we developed pROC, a package for R and S+ that contains a set of tools displaying, analyzing, smoothing and comparing ROC curves in a user-friendly, object-oriented and flexible interface. With data previously imported into the R or S+ environment, the pROC package builds ROC curves and includes functions for computing confidence intervals, statistical tests for comparing total or partial area under the curve or the operating points of different classifiers, and methods for smoothing ROC curves. Intermediary and final results are visualised in user-friendly interfaces. A case study based on published clinical and biomarker data shows how to perform a typical ROC analysis with pROC. pROC is a package for R and S+ specifically dedicated to ROC analysis. It proposes multiple statistical tests to compare ROC curves, and in particular partial areas under the curve, allowing proper ROC interpretation. pROC is available in two versions: in the R programming language or with a graphical user interface in the S+ statistical software. It is accessible at http://expasy.org/tools/pROC/
under the GNU General Public License. It is also distributed through the CRAN and CSAN public repositories, facilitating its installation.read more
Citations
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Journal ArticleDOI
Mapping Local Effects of Forest Properties on Fire Risk across Canada
Pierre Y. Bernier,Sylvie Gauthier,Pierre-Olivier Jean,Francis Manka,Yan Boulanger,André Beaudoin,Luc Guindon +6 more
TL;DR: The authors used Canada-wide MODIS-based maps of annual fires and of forest properties to identify burned and unburned pixels for the 2002-2011 period and bin them into classes of forest composition (% conifer and broadleaved deciduous), above-ground tree biomass and stand age.
Journal ArticleDOI
Combination of biomarkers for diagnosis of acute kidney injury after cardiopulmonary bypass
John R. Prowle,Paolo Calzavacca,Elisa Licari,E. Valentina Ligabo,Jorge Enrique Echeverri,Sean M. Bagshaw,Anja Haase-Fielitz,Michael Haase,Vaughn Ostland,Eisei Noiri,Mark Westerman,Prasad Devarajan,Rinaldo Bellomo +12 more
TL;DR: Despite statistical significance in receiver–operator characteristic (ROC) analysis, when assessed by ability to define patients to two groups at high and low risk of AKI, combinations failed to significantly improve classification of risk compared to the best single biomarkers.
Journal ArticleDOI
Blood-based protein biomarker panel for the detection of colorectal cancer.
Kim Y. C. Fung,Bruce Tabor,Michael Buckley,Ilka Priebe,Leanne Purins,Celine Pompeia,Gemma V. Brierley,Trevor Lockett,Peter Gibbs,Jeanne Tie,Paul J. McMurrick,James Moore,Andrew Ruszkiewicz,Edouard C. Nice,Timothy E. Adams,Antony W. Burgess,Leah J. Cosgrove +16 more
TL;DR: A 3 biomarker panel is identified that has higher sensitivity and specificity for early stage (Stage I and -II) disease than the faecal occult blood test, raising the possibility for its use as a non-invasive blood diagnostic or screening test.
Journal ArticleDOI
Metabolic alterations in the sera of Chinese patients with mild persistent asthma: a GC-MS-based metabolomics analysis
TL;DR: The levels of succinate and inosine were highly upregulated in the asthmatic patients, suggesting a greater effort to breathe during exacerbation and hypoxic stress due to asthma.
Journal ArticleDOI
The endoplasmic reticulum stress marker CHOP predicts survival in malignant mesothelioma
Lucy E. Dalton,Hanna J Clarke,J Knight,M H Lawson,James Wason,David A. Lomas,William J. Howat,Robert C. Rintoul,Doris Rassl,Stefan J. Marciniak,Stefan J. Marciniak +10 more
TL;DR: Staining for CHOP provides prognostic information that may be useful in the stratification of patients with mesothelioma, and expression of the ER stress-responsive transcription factor C/EBP homologous protein (CHOP) correlated with patient survival and remained an independent prognostic variable in pairwise comparisons with all clinical variables tested.
References
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BookDOI
Modern Applied Statistics with S
W. N. Venables,Brian D. Ripley +1 more
TL;DR: A guide to using S environments to perform statistical analyses providing both an introduction to the use of S and a course in modern statistical methods.
Journal ArticleDOI
An introduction to ROC analysis
TL;DR: The purpose of this article is to serve as an introduction to ROC graphs and as a guide for using them in research.
Journal ArticleDOI
Comparing the areas under two or more correlated receiver operating characteristic curves: a nonparametric approach.
TL;DR: A nonparametric approach to the analysis of areas under correlated ROC curves is presented, by using the theory on generalized U-statistics to generate an estimated covariance matrix.
Journal ArticleDOI
A method of comparing the areas under receiver operating characteristic curves derived from the same cases.
TL;DR: This paper refines the statistical comparison of the areas under two ROC curves derived from the same set of patients by taking into account the correlation between the areas that is induced by the paired nature of the data.
Modern Applied Statistics With S
TL;DR: The modern applied statistics with s is universally compatible with any devices to read, and is available in the digital library an online access to it is set as public so you can download it instantly.