Users' documentation for trioSampling in c++


Installation

Note: Please, substitute <ver> by the current version in all explantions below.

Compiled version:

Compiled version for linux.-After you have succesfully obtained the archive you can execute the following Unix commands to install the program:

Source code version:

Source code version for linux.-After you have succesfully obtained the archive you can execute the following Unix commands to install the program:

Execution

To use trioSampling, use the following command line:

./trioSampling filename> <only hetero parents> <sample ID> <total SNPs> <recombination within blocks> <type> <maf D> <marker MAF> <recombination to disease loci> <maf E> <mutation rate> <two haplotypes> <sample size> <genetic model> <relative risk>

where

 

Format of the input file

A text file of SNP data set, in post-makeped format as described here:

One row per individual, 7 + 2xTotalSNPs columns, with TotalSNPs being the number of SNPs. Columns must be separared by a blank or tab character.Each column must contain an integer. See an example of input file.

Description of columns:

Output for the program trioSampling

The output will be written at a file also in post-makeped format.