DFCalc: DNA Fragment Calculator

Welcome to the web site for DNA Fragment Calculator (DFCalc), software which produces lists of ions expected to appear in tandem mass spectra of known DNA sequences. The software allows the user to select which classes of ions are included in the prediction (selecting among A, B, C, D, W, X, Y, and Z ions) as well as which variants of the 5' ions are included (base losses or water losses). Ions resulting from double fragmentations can also be predicted using this software.

DFCalc was written in Java and can be run using any Java Virtual Machine that supports applications written with version 1.1 of that language. It sports a graphical user interface for entry of the sequence by typing or via the clipboard. The GUI also allows the user to modify the types of ions to be included in the analysis. The resulting list of ions is directed to a file named by the user and is formatted as a tab-delimited text file with one line per ion.

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or any later version.

Look at a screenshot of the GUI.

Look at a sample output file.

Download DFCalc version 1.0 with its source code.
[Note: this link was corrected 6/11/02. Sorry for the inconvenience.]

Read DFCalc's readme.txt file for more information.

If you would like more information about DFCalc or have suggestions for its improvement, please contact David Tabb at dtabb@u.washington.edu. I would be glad to hear from you!

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.