The relative cost of of a false negative classification (as compared with a false positive classification) Negative predictions are not equivalent: a numeric vector of length 2 In addition, weights can be supplied if false positive and false Min((1 - sensitivities)^2 + (1- specificities)^2) The plot with perfect sensitivity or specificity. The optimal threshold is the point closest to the top-left part of Max(sensitivities + specificities) “closest.topleft” That maximizes the distance to the identity (diagonal) line. Youden's J statistic (Youden, 1950) is employed. If x="best", the thod argument controls how the In this case, call the pROC::coords explicitly.
Superseded by functions in other packages such asĬolorspace or spatstat if they are loaded after The coords function in this package is a generic, but it might be The specificity and specificity of the point is interpolated and Step curves), then only the upper-left-most point coordinates Points of the ROC curve (in roc$sensitivities or The function checks if the specificity or sensitivity is one of the Has been defined, and not necessarily to the whole curve.įor input="specificity" and input="sensitivity", If x is a character, theĬoordinates are limited to the thresholds within the partial AUC if it ROC curve), or only the threshold(s) corresponding to the best sum of Thresholds, only the thresholds defining local maximas (upper angles of the The following convenience characters are allowed: “all”, If input="threshold", the coordinates for the thresholdĪre reported, even if the exact threshold do not define the ROCĬurve. “threshold” coordinates cannot be determined in a TheĬoordinates are defined by the x and inputĪrguments. This function takes a “roc” or “smooth.roc” object asįirst argument, on which the coordinates will be determined. Setting this argument to TRUE if you are calling the functionįurther arguments passed from other methods. A ame is more convenientĪnd flexible to use, but incurs a slight speed penalty. See coords_transpose for more details the change. Since pROC 1.16 the default value is FALSE. To return the thresholds in columns ( TRUE) or rows ( FALSE). If x="best", the weights to determine the See details in the ‘Best thresholds’ section. If transpose = TRUE and either ret or x isīest threshold. If TRUE the result is coerced to the lowest Alternatively, the single value “all” can be used to returnĭEPRECATED. The argument is ignored when x is a character. That “threshold” is not allowed in and that See the “Valid input” column under “Available coordinates”.Ĭan be shortened like ret.
“sensitivity”, but can be any of the monotone coordinate available, Typically one of “threshold”, “specificity” or If x is numeric, the kind of input coordinate (x). Maximas of the ROC curve) or “best” (see thodĪrgument). The points of the ROC curve), “local maximas” (the local Numeric (if so, their meaning isĭefined by the input argument) or one of “all” (all Roc function, or a “smooth.roc” object from the ) # S3 method for class 'smooth.roc' coords ( smooth.roc, x, input, ret = c ( "specificity", "sensitivity" ), as.list = FALSE, drop = TRUE, thod = c ( "youden", "closest.topleft" ), best.weights = c ( 1, 0.5 ), transpose = FALSE, as.matrix = FALSE. ) # S3 method for class 'roc' coords ( roc, x, input = "threshold", ret = c ( "threshold", "specificity", "sensitivity" ), as.list = FALSE, drop = TRUE, thod = c ( "youden", "closest.topleft" ), best.weights = c ( 1, 0.5 ), transpose = FALSE, as.matrix = FALSE. : Sample size and power computation for ROC curvesĬoords (.lines.roc: Add a ROC line to a ROC plot.: Does the ROC curve have a partial AUC?.groupGeneric: pROC Group Generic Functions.cov: Covariance of two paired ROC curves.coords_transpose: Transposing the output of 'coords'.ci.thresholds: Compute the confidence interval of thresholds.ci.sp: Compute the confidence interval of specificities at given.ci.se: Compute the confidence interval of sensitivities at given.ci.coords: Compute the confidence interval of arbitrary coordinates.ci.auc: Compute the confidence interval of the AUC.ci: Compute the confidence interval of a ROC curve.
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