Contents

Columns

Each row of individual data contains the following elements; these are columns in the data file.

1. Label (Optional; string) A string of integers or characters used to designate each individual in the sample.
2. PopData (Optional; integer) An integer designating a user-defined population from which the individual was obtained (for instance these might designate the geographic sampling locations of individuals).
3. PopFlag (Optional; 0 or 1) A Boolean flag which indicates whether to use the PopData when using learning learning samples (see USEPOPINFO, below). (Note: A Boolean variable (flag) is a variable which takes the values TRUE or FALSE, which are designated here by the integers 1 (use PopData) and 0 (don't use PopData), respectively.)
4. Phenotype (Optional; integer) An integer designating the value of a phenotype of interest, for each individual. ($\phi ^{(i)}$ in table.) (The phenotype information is not actually used in this program. It is here to permit a smooth interface with the program STRAT which is used for association mapping.)
5. Extra Columns (Optional; string) It may be convenient for the user to include additional data in the input file which are ignored by the program. These go here, and may be strings of integers or characters.
6. Genotype Data (Required; integer) Each allele at a given locus should be coded by a unique integer (eg microsatellite repeat score).