Short: ABaCUS 0.48 for AMIGA Author: peru@maya.dei.unipd.it (Steve Peruzzi) Uploader: peru maya dei unipd it (Steve Peruzzi) Type: misc/sci Architecture: m68k-amigaos WHAT IS ABACUS? ABaCUS is a no-frills program developed to investigate the significance of the putative correspondence between exons and units of protein structure. This type of analysis takes the form of an attempt to eliminate the reference hypothesis (sometimes called a "null" hypothesis) that no correspondence exists. A reference hypothesis in this case consists of a reference model for random gene structures, and a scoring rule for quantifying correspondences. ABaCUS creates and reads files containing observed data supplied by the user, then uses this information to generate reference genes according to one of several available models. The observed and reference genes are then scored according to a correspondence rule designated by the user, and the scores are compared in order to determine whether the reference hypothesis (i.e., no correspondence) can be rejected. This program may be useful in your research if you are studying the origin and evolution of intron-containing genes. This is the porting for AMIGA, and has been compiled with SAS-C V6.51. To run simply open a SHELL and type ABACUS, for infos on using ABACUS read the manual ABACUS.HLP. This archive includes also a PDB file for a tutorial: a cytochrome C from rice embryos (read the manual). Thanx to Dr. Arlin Stoltzfus and Dr. David Spencer Canadian Institute for Advanced Research, Dalhousie University for this excellent tool. Steve Peruzzi peru@maya.dei.unipd.it University of Padua, ITALY