SampleOverlapMatrix: An example data of sample-overlap matrices.

In CPBayes: Bayesian Meta Analysis for Studying Cross-Phenotype Genetic Associations

Description

An example data of sample-overlap matrices for five different diseases in the Kaiser GERA cohort (a real data). SampleOverlapMatrix is a list that contains an example of the sample overlap matrices for five different diseases in the Kaiser GERA cohort. SampleOverlapMatrix$n11 provides the number of cases shared between all possible pairs of diseases. SampleOverlapMatrix$n00 provides the number of controls shared between all possible pairs of diseases. SampleOverlapMatrix$n10 provides the number of subjects who are case for one disease and control for another disease.

Usage

data(SampleOverlapMatrix)

Format

A list consisting of three integer square matrices (each of dimension 5 by 5):

n11

number of cases shared between all possible pairs of diseases.

n00

number of controls shared between all possible pairs of diseases.

n10

number of subjects who are case for one disease and control for another disease.

Examples

data(SampleOverlapMatrix)
n11 <- SampleOverlapMatrix$n11
n11
n00 <- SampleOverlapMatrix$n00
n00
n10 <- SampleOverlapMatrix$n10
n10
estimate_corln(n11,n00,n10)

Example output

       trait1 trait2 trait3 trait4 trait5
trait1   9048   4647   2985   2835   1812
trait2   4647  13565   3873   4245   2419
trait3   2985   3873  14681   6285   2044
trait4   2835   4245   6285  16697   2059
trait5   1812   2419   2044   2059   7121
       trait1 trait2 trait3 trait4 trait5
trait1  44683  35765  32987  30821  39374
trait2  35765  40166  29358  27714  35464
trait3  32987  29358  39050  28638  33973
trait4  30821  27714  28638  37034  31972
trait5  39374  35464  33973  31972  46610
       trait1 trait2 trait3 trait4 trait5
trait1      0   4401   6063   6213   7236
trait2   8918      0   9692   9320  11146
trait3  11696  10808      0   8396  12637
trait4  13862  12452  10412      0  14638
trait5   5309   4702   5077   5062      0
            trait1      trait2     trait3       trait4      trait5
trait1 1.000000000 0.270490702 0.05723195  0.002505875  0.08989408
trait2 0.270490702 1.000000000 0.01601813  0.002744961  0.07849158
trait3 0.057231953 0.016018131 1.00000000  0.155476792  0.01211052
trait4 0.002505875 0.002744961 0.15547679  1.000000000 -0.01824859
trait5 0.089894085 0.078491585 0.01211052 -0.018248589  1.00000000

CPBayes documentation built on Dec. 2, 2020, 9:07 a.m.