Read in “tab.paired”-Objects

Reads in objects of class tab.paired using cell frequencies.

Usage

read.tab.paired(d.a, d.b, d.c, d.d, nd.a, nd.b, nd.c, nd.d, testnames, ...)

Arguments

d.a

The number of diseased subjects with a positive test 1 and a positive test 2.

d.b

The number of diseased subjects with a negative test 1 and a positive test 2.

d.c

The number of diseased subjects with a positive test 1 and a negative test 2.

d.d

The number of diseased subjects with a negative test 1 and a negative test 2.

nd.a

The number of non-diseased subjects with a positive test 1 and a positive test 2.

nd.b

The number of non-diseased subjects with a negative test 1 and a positive test 2.

nd.c

The number of non-diseased subjects with a positive test 1 and a negative test 2.

nd.d

The number of non-diseased subjects with a negative test 1 and a negative test 2.

testnames

An optional vector specifying the names of diagnostic test 1 and diagnostic test 2, e.g. c("Test A","Test B"). If not supplied, the variable names are used as testnames.

...

Additional arguments (usually not required).

Value

Returns a list of class tab.paired containing:

diseased

A contingency table (matrix) of test results among diseased subjects.

	Test1 pos.	Test1 neg.	Total
Test 2 pos.	d.a	d.b	d.a+d.b
Test 2 neg.	d.c	d.d	d.c+d.d
Total	d.a+d.c	d.b+d.d	d.a+d.b+d.c+d.d

non.diseased

A contingency table (matrix) of test results among non-diseased subjects.

	Test1 pos.	Test1 neg.	Total
Test 2 pos.	nd.a	nd.b	nd.a+nd.b
Test 2 neg.	nd.c	nd.d	nd.c+nd.d
Total	nd.a+nd.c	nd.b+nd.d	nd.a+nd.b+nd.c+nd.d

testnames

The names of the diagnostic tests.

Note

Objects of class tab.paired are essential arguments for various functions in the DTComPair-package.

See also

tab.paired, print.tab.paired, acc.paired, generate.paired.

Examples

read.t2 <- read.tab.paired(321, 51, 730, 272, 
                           120, 8, 74, 109,
                           testnames=c("Test A", "Test B"))
class(read.t2)
#> [1] "tab.paired"
read.t2
#> Two binary diagnostic tests (paired design)
#> 
#> Test1: 'Test A'
#> Test2: 'Test B'
#> 
#> Diseased:
#>            Test1 pos. Test1 neg. Total
#> Test2 pos.        321         51   372
#> Test2 neg.        730        272  1002
#> Total            1051        323  1374
#> 
#> Non-diseased:
#>            Test1 pos. Test1 neg. Total
#> Test2 pos.        120          8   128
#> Test2 neg.         74        109   183
#> Total             194        117   311
#> 
acc.paired(read.t2)
#> Diagnostic accuracy of test 'Test A'
#> 
#> (Estimates, standard errors and 95%-confidence intervals)
#> 
#>                  Est.         SE  Lower CL  Upper CL
#> Sensitivity 0.7649199 0.01143991 0.7424981 0.7873417
#> Specificity 0.3762058 0.02746966 0.3223663 0.4300453
#> PPV         0.8441767 0.01027894 0.8240304 0.8643231
#> NPV         0.2659091 0.02106276 0.2246268 0.3071913
#> 
#>            Est.   SE (log)  Lower CL Upper CL
#> PDLR  1.2262376 0.04650675 1.1194070 1.343264
#> NDLR  0.6248709 0.08774821 0.5261371 0.742133
#> 
#> ----------------------------------------------------------
#> Diagnostic accuracy of test 'Test B'
#> 
#> (Estimates, standard errors and 95%-confidence intervals)
#> 
#>                  Est.         SE  Lower CL  Upper CL
#> Sensitivity 0.2707424 0.01198741 0.2472475 0.2942372
#> Specificity 0.5884244 0.02790551 0.5337306 0.6431182
#> PPV         0.7440000 0.01951738 0.7057466 0.7822534
#> NPV         0.1544304 0.01049740 0.1338558 0.1750049
#> 
#>            Est.   SE (log) Lower CL Upper CL
#> PDLR  0.6578193 0.08097800 0.561278 0.770966
#> NDLR  1.2393395 0.05019212 1.123225 1.367458