gif {gap} | R Documentation |
Kinship coefficient and genetic index of familiality
Description
Kinship coefficient and genetic index of familiality
Usage
gif(data, gifset)
Arguments
data |
the trio data of a pedigree. |
gifset |
a subgroup of pedigree members. |
Details
The genetic index of familality is defined as the mean kinship between all pairs of individuals in a set multiplied by 100,000. Formally, it is defined in (Gholami and Thomas 1994) as
where is the number of individuals in the set and
is the
kinship coefficient between individuals
and
.
The scaling is purely for convenience of presentation.
Value
The returned value is a list containing:
gifval the genetic index of familiarity.
Note
Adapted from gif.c, testable with -Dexecutable as standalone program, which can be use for any pair of indidivuals
Author(s)
Alun Thomas, Jing Hua Zhao
References
Gholami K, Thomas A (1994). “A linear time algorithm for calculation of multiple pairwise kinship coefficients and the genetic index of familiality.” Comput Biomed Res, 27(5), 342-50. ISSN 0010-4809 (Print) 0010-4809, doi:10.1006/cbmr.1994.1026.
See Also
Examples
## Not run:
test<-c(
5, 0, 0,
1, 0, 0,
9, 5, 1,
6, 0, 0,
10, 9, 6,
15, 9, 6,
21, 10, 15,
3, 0, 0,
18, 3, 15,
23, 21, 18,
2, 0, 0,
4, 0, 0,
7, 0, 0,
8, 4, 7,
11, 5, 8,
12, 9, 6,
13, 9, 6,
14, 5, 8,
16, 14, 6,
17, 10, 2,
19, 9, 11,
20, 10, 13,
22, 21, 20)
test<-matrix(test,ncol=3,byrow=TRUE)
gif(test,gifset=c(20,21,22))
# all individuals
gif(test,gifset=1:23)
## End(Not run)