This implementation of the score test for linkage in Generalized Linear Models consists of two packages. Each package is a collection of 3 compiled C++ programs.
GLM_scoretest (containing ibd.variance, glm.weight and score.test) can deal with binary and count data. A set of example files can be downloaded at the bottom of this page.
QTL_scoretest (containing ibd.variance, qtl.weight and score.test) can deal with quantitative traits.

The linkage analysis is performed in a three step procedure: 1) estimation of the variance of the IBD by simulation (ibd.variance); 2) age at onset weight computation (glm.weight or qtl.weight) and 3) score test computation (score.test).

The program uses MERLIN for IBD computations so MERLIN should be accessible from the directory you want to run it in. The input files are also in MERLIN format.
The manuals for each program are in the readme files.

Citation:  J. Lebrec and H. C. van Houwelingen. Score test for linkage in generalized linear models Hum Hered. 64:5-15 (2007)