From jaw@ajax.cs.uga.edu  Thu Sep 19 09:01:49 2002
Date: Thu, 19 Sep 2002 09:56:08 -0400 (EDT)
From: Jian Wang <jaw@cs.uga.edu>
To: <archive@bio.indiana.edu>

Dear Sir/Madam,

We are going to submit an application note to the Bioinformatics journal.
The title of the note is: GFPE: Gene-finding Program Evaluation. We have
compressed the set of files of our program and we'd like to put it onto
your server.
..

*************************************

Jian Wang
Computer Science Department
University of Georgia
Athens, GA 30602
Phone:  706-542-7918(lab)
http://www.cs.uga.edu/~jaw

At first use the command "javac *.java" to compile the program.

Then use the following commands to run the program.

To calculate the prediction accuracy in the coding level:

java TestCodingAccuracy sequence_file_name annotation_file_name prediction_file_name

To calculate the prediction accuracy in the exon level:

java TestExonAccuracy annotation_file_name prediction_file_name

To calculate the prediction accuracy in the protein level:

java TestProteinAccuracy sequence_file_name annotation_file_name prediction_file_name