Description Usage Arguments Value Note Author(s) See Also Examples
Do the ROC (receiver operating characteristic) analysis and calculate vector of cutoff values and associated number of true positives (TP), false negatives (FN), false positives (FP), and true negatives (TN) as well as performance measures such as sensitivity, specificity, etc.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54  ## S3 method for class 'as_str'
print(x, ...)
## S3 method for class 'roc_df'
print(x, ..., show_all = FALSE, perf_digits = 2, fmt = "%.3g")
## S3 method for class 'roc_opt_result'
print(x, digits = 3, ...)
## S3 method for class 'roc_info'
print(x, ...)
roc_analysis(
x,
gr,
pos_label = levels(gr)[2],
pos_is_larger = NULL,
optimize_by = "bac",
results = "all",
...
)
## Default S3 method:
roc_analysis(
x,
gr,
pos_label = levels(gr)[2],
pos_is_larger = NULL,
optimize_by = "bac",
results = "all",
...
)
## S3 method for class 'data.frame'
roc_analysis(
x,
gr,
pos_label = levels(gr)[2],
pos_is_larger = NULL,
optimize_by = "bac",
results = "all",
...
)
## S3 method for class 'matrix'
roc_analysis(
x,
gr,
pos_label = levels(gr)[2],
pos_is_larger = NULL,
optimize_by = "bac",
results = "all",
...
)

x 
( 
... 
[!!!] Passed to further methods. 
show_all 
( 
perf_digits 
( 
fmt 
( 
digits 
( 
gr 
( 
pos_label 
( 
pos_is_larger 
( 
optimize_by 
( 
results 
( 
A list (which also inherits from class "roc_result_list"
)
with three fields: $info
, $optimal
, $all_results
.
$info
is a data frame with columns
var_name
 empty string reserved for variable name,
neg_label
, pos_label
labels of negative and positive
groups respectively,
n_neg
, n_pos
, n_total
 number of negative
and positive cases as well as number of cases in total.
$optimal
one row from $all_results
, which was
determined as having optima threshold (cutoff) value. Sometimes it can be
several rows, if the performance is equally good.
$all_results
is a data frame with columns
cutoffs
for cutoff values,
tp
(number of true positives),
fn
(number of false negatives),
fp
(number of false positives),
tn
(number of true negatives),
... [!!!]
This function is inspired by functions predict
and
.compute.unnormalized.roc.curve
from ROCR package.
Vilmantas Gegzna
Other functions for ROC:
access_elements
,
calculate_performance()
,
roc_performance_measures
,
roc_predict()
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46  library(manyROC)
library(ggplot2)
# Make some data
set.seed(1)
(x < rnorm(10))
(gr < gl(n = 2, k = 5, length = 10, labels = c("H", "S")))
# Explore the functions
roc_analysis(x, gr)
roc_analysis(x, gr, pos_label = "H")
#  Example 2 
set.seed(1)
x2 < c(rnorm(50, mean = 14), rnorm(50, mean = 20))
gr2 < gl(2, 50, labels = c("Neg", "Pos"))
(roc_rez < roc_analysis(x2, gr2))
optimal_cutoff2 < roc_rez$optimal[1]
qplot(x2, fill = gr2, color = gr2,
geom = c("density", "rug"), alpha = I(0.3)) +
geom_vline(xintercept = optimal_cutoff2)
#  Example 3 
set.seed(1)
x3 < c(rnorm(100, mean = 11), rnorm(100, mean = 14))
gr3 < gl(2, 100, labels = c("Neg", "Pos"))
(roc_rez3 < roc_analysis(x3, gr3))
optimal_cutoff3 < roc_rez3$optimal[1]
qplot(x3, fill = gr3, color = gr3,
geom = c("density", "rug"), alpha = I(0.3)) +
geom_vline(xintercept = roc_rez3$optimal[1])

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