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GFF Comparison Utility v1.2 (11-03-2005)
Download from SWK.com
This utility will compare two GFF files and output the differences found between them.
There are two forms of syntax for this tool.
Syntax 1: no parameters (or launched directly via Windows Explorer)
This will call up a pair of Open File dialogs where you specify the two GFF files to compare. Then a Save As dialog will ask you where to save the output report.
Syntax 2: gffcompare.exe "file1" "file2"
This will compare file1 to file2 and send the output to STDOUT (which you can pipe or redirect).