linkage user's guide (version 5.2)
1.0 Overview
The core of the LINKAGE package is a series of programs for
maximum likelihood estimation of
recombination rates, calculation
of lod score tables, and analysis of genetic risks. The analysis
programs are divided into two groups. The first group can be
used for general pedigrees with marker and disease loci. Programs
in the second group are for three-generation families and
codominant marker loci, and are primarily intended for the
construction of genetic maps from data on reference families.
The input to the LINKAGE programs is divided into pedigree and
genotypic data, on the one hand; and locus description, recombination
rates, and gene order, on the other. The pedigree and
genotypic data must be processed prior to analysis by a series of
preparatory programs that accompany the analytic programs in the
LINKAGE package.
The LINKAGE package contains additional control programs that
provide a "shell," or interface, to facilitate the use of the
analytic programs. The control programs are not described here.
next: 1.1 general features
up: 1. introduction