Convert list to concordance matrix
list2concordance(x, naValue = NA, makeSigned = TRUE, verbose = FALSE, ...)list of named numerical vectors, where the sign (positive
or negative sign) indicates directionality, and is used to calculate
concordance, which is a measure of the agreement of the overall set
of directions shared between each pair of vectors.
value passed to jamba::rmNA() used to replace any
NaN values in the output matrix. The NaN values result when a
pair of vectors has no shared non-zero named entry.
logical indicating whether to force the vectors in
the input list x to contain only values c(-1,0,1), by calling
base::sign().
logical indicating whether to print verbose output.
additional arguments are passed to list2imSigned().
This function calculates pairwise concordance using Kruskal concordance coefficient (ref) using the following equation:
(number_agree - number_disagree) / (total_shared)
The equation is applied to each pair of named vectors in the input
list x, and reflects the degree of agreement in direction (+ or -)
between shared named elements, with +1 being perfect concordance
(agreement), and -1 being perfect discordance (disagreement.) Values
of zero indicate equal agreement and disagreement, and therefore
reflect no concordance nor discordance. Values
of NA occur when no named entries are shared.
This function calls list2imSigned() to produce a signed
incidence matrix, which is then used with base::crossprod()
to calculate the full matrix of values.
Other jam list functions:
colors_from_list(),
im2list_dep(),
im2list(),
imSigned2list_dep(),
imSigned2list(),
list2imSigned(),
list2im()
set.seed(123);
l123 <- lapply(jamba::nameVector(1:3), function(i){
jamba::nameVector(
sample(c(-1,-1,0,1), replace=TRUE, size=15),
letters[1:15]
)
});
list2concordance(l123);
#> 1 2 3
#> 1 1.0000000 0.4285714 0.0000000
#> 2 0.4285714 1.0000000 0.3333333
#> 3 0.0000000 0.3333333 1.0000000
# observe the signed incidence matrix
list2imSigned(l123);
#> 1 2 3
#> a 0 0 -1
#> b 0 1 -1
#> c 0 -1 0
#> d -1 0 1
#> e 0 0 -1
#> f -1 -1 -1
#> g -1 1 0
#> h -1 -1 0
#> i 0 -1 -1
#> j -1 -1 1
#> k 1 0 0
#> l -1 1 1
#> m -1 -1 -1
#> n -1 0 -1
#> o -1 -1 0