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
Mathematical models for diffusion-weighted imaging of prostate cancer using b values up to 2000 s/mm(2) : correlation with Gleason score and repeatability of region of interest analysis.
Jussi Toivonen,Jussi Toivonen,Harri Merisaari,Harri Merisaari,M. Pesola,Pekka Taimen,Peter J. Boström,Tapio Pahikkala,Hannu J. Aronen,Hannu J. Aronen,Ivan Jambor +10 more
TL;DR: To evaluate four mathematical models for diffusion weighted imaging (DWI) of prostate cancer (PCa) in terms of PCa detection and characterization, four models are evaluated.
Journal ArticleDOI
Improved prediction of immune checkpoint blockade efficacy across multiple cancer types.
Diego Chowell,Seong-Keun Yoo,Seong-Keun Yoo,Cristina Valero,Alessandro Pastore,Chirag Krishna,Mark Lee,Douglas Hoen,Douglas Hoen,Hongyu Shi,Daniel Kelly,Neal Patel,Vladimir Makarov,Vladimir Makarov,Xiaoxiao Ma,Xiaoxiao Ma,Lynda Vuong,Erich Y. Sabio,Kate Weiss,Fengshen Kuo,Tobias L. Lenz,Robert M. Samstein,Nadeem Riaz,Prasad S. Adusumilli,Vinod P. Balachandran,George Plitas,A. Ari Hakimi,Omar Abdel-Wahab,Alexander N. Shoushtari,Michael A. Postow,Robert J. Motzer,Marc Ladanyi,Ahmet Zehir,Michael F. Berger,Mithat Gonen,Luc G. T. Morris,Nils Weinhold,Timothy A. Chan +37 more
TL;DR: In this paper, a machine learning model was developed to predict ICB response by integrating genomic, molecular, demographic and clinical data from a comprehensively curated cohort (MSK-IMPACT) with 1,479 patients treated with ICB across 16 different cancer types.
Journal ArticleDOI
Modelling the determinants of ignition in the Sydney Basin, Australia: implications for future management
TL;DR: In this article, the authors examined patterns of natural and arson ignitions within the densely populated Sydney region of south-eastern Australia to determine the extent to which management can alter the risk of ignition.
Journal ArticleDOI
Dual-center, dual-platform microRNA profiling identifies potential plasma biomarkers of adult temporal lobe epilepsy.
Rana Raoof,Rana Raoof,Sebastian Bauer,Sebastian Bauer,Hany El Naggar,Hany El Naggar,Niamh M. C. Connolly,Gary P. Brennan,Elizabeth Brindley,Thomas D.M. Hill,Hazel McArdle,Elaine Spain,Robert J. Forster,Robert J. Forster,Jochen H. M. Prehn,Hajo M. Hamer,Norman Delanty,Norman Delanty,Felix Rosenow,Felix Rosenow,Catherine Mooney,Catherine Mooney,David C. Henshall +22 more
TL;DR: This study demonstrates the biomarker potential of circulating microRNAs for epilepsy diagnosis and mechanistic links to underlying pathomechanisms using an electrochemical RNA microfluidic disk as a prototype point-of-care device.
Journal ArticleDOI
Validation of patient health questionnaire (PHQ) for major depression in Chinese outpatients with multiple somatic symptoms: a multicenter cross-sectional study.
Nana Xiong,Kurt Fritzsche,Jing Wei,Xia Hong,Rainer Leonhart,Xudong Zhao,Lan Zhang,Liming Zhu,Guoqing Tian,Sandra Nolte,Sandra Nolte,Felix Fischer +11 more
TL;DR: PHQ-9 and PHQ-2 were reliable and valid to detect major depression in Chinese patients with multiple somatic symptoms and multi-group confirmatory factor analysis based on unidimensional model showed similar psychometric properties over the groups with low and high somatic symptom burden.
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