trio.data contains several simulated data sets used in the different examples for the analyses with the functions in the
For the applications of genotypic TDTs for individual SNPs and two-way interactions with, for example,
trio.data contains a 300 x 6 matrix
mat.test consisting of genotype data for 100 trios genotyped at 6 SNPs.
For the application of
probTDT to genotype probabilities,
trio.data contains a 334 x 180 matrix called
prob.mat.test containing genotype probabilities for 334 SNPs and 20 trios.
For the preparation of the trio data for an application of trio logic regression with
trio.data contains different data set containing genotype data for 10 SNPs in 100
trios in different formats.
trio.gen.err consist of 12 columns and 300 rows, where
the first two columns contain family identifier and individual identifier. In the columns afterwards,
each SNPs is encoded in one variable denoting the number of minor alleles.
trio.ped.err consist of 26 columns and 300 rows, where
the first six columns identify the family structure of the data, and the phenotype. Besides the variables
providing information on the family structure and the phenotypes
(columns 1 to 6), each SNPs is encoded in two variables denoting the alleles.
Contrary to the other data sets,
trio.ped.err contain Mendelian errors.
For the application of the functions
for computing the pairwise LD values and for detecting the LD blocks, respectively,
trio.data contains a 500 x 50 matrix called
LDblock that is composed of genotype data for
10 LD blocks each consisting of 5 SNPs in strong LD.
Finally, for the simulation of trio data with
trio.data contains examples for haplotype frequencies used in these
data.frames containing haplotype information, including the
haplotype block identifier, haplotype, and haplotype frequency. While
freq.hap is a data frame consisting of
20 rows and 3 columns,
simuBkMap consists of 66 rows and 3 columns.
step3way is a list internally used
for simulation, containing some indexes and sampling frequencies.
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