Description

Allegro, a new computer program for multipoint linkage analysis, was decribed as a faster version of genehunter.

How to Use

Sample session (user input in bold): Some of the example files can be copied from /usr/local/allegro/allegro-2.0f/examples/

<helix>% cd WhateverDirWithInputFiles
<helix>% allegro ex1.opt
allegro 2.0f - fast multipoint linkage analysis

Using options file ex1.opt

Seed is 17560 38375 13070

Using linkage style input files:
PREFILE ex1.pre
DATFILE ex1.dat

The following analyses will be performed:
MODEL mpt par param.mpt fparam.mpt
MODEL mpt exp pairs equal exppairs.mpt
MODEL spt exp pairs equal exppairs.spt
MODEL mpt lin all power:1.00 exppairs.1.mpt
HAPLOTYPE haplo.out ihaplo.out founder.out inher.out
CROSSOVERRATE xover.out fxover.out

SWAPDIRNAME ./7457

Analysing 1 family (f1, 2 bits)
Keeping all calculations in memory (~1Mb)
Processing family f1 (2 bits)

All families processed

Run completed in 00:00:00

Documentation

http://helix.nih.gov/Applications/allegro/manual.pdf
http://helix.nih.gov/Applications/allegro/fig3.pdf
http://helix.nih.gov/Applications/allegro/fig4.pdf
http://helix.nih.gov/Applications/allegro/tables.pdf
http://helix.nih.gov/Applications/allegro/tech.pdf
http://helix.nih.gov/Applications/allegro/tech2.pdf