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ModiFinder package

Project description

Welcome to ModiFinder's documentation!

ModiFinder is a tool for site localization of structural modifications using MS/MS data.

This project is under active development.

The documentation is available at: https://wang-bioinformatics-lab.github.io/ModiFinder_base/

Citing

ModiFinder: Tandem Mass Spectral Alignment Enables Structural Modification Site Localization

Mohammad Reza Zare Shahneh, Michael Strobel, Giovanni Andrea Vitale, Christian Geibel, Yasin El Abiead, Neha Garg, Berenike Wagner, Karl Forchhammer, Allegra Aron, Vanessa V Phelan, Daniel Petras, and Mingxun Wang

Journal of the American Society for Mass Spectrometry 2024 35 (11), 2564-2578

DOI: 10.1021/jasms.4c00061

License

Academic Software License: © 2024 UCR (“Institution”). Academic or nonprofit researchers are permitted to use this Software (as defined below) subject to Paragraphs 1-4:

1. Institution hereby grants to you free of charge, so long as you are an academic or nonprofit researcher, a nonexclusive license under Institution’s copyright ownership interest in this software and any derivative works made by you thereof (collectively, the “Software”) to use, copy, and make derivative works of the Software solely for educational or academic research purposes, and to distribute such Software free of charge to other academic or nonprofit researchers for their educational or academic research purposes, in all cases subject to the terms of this Academic Software License. Except as granted herein, all rights are reserved by Institution, including the right to pursue patent protection of the Software.
2. Any distribution of copies of this Software -- including any derivative works made by you thereof -- must include a copy (including the copyright notice above), and be made subject to the terms, of this Academic Software License; failure by you to adhere to the requirements in Paragraphs 1 and 2 will result in immediate termination of the license granted to you pursuant to this Academic Software License effective as of the date you first used the Software.
3. IN NO EVENT WILL INSTITUTION BE LIABLE TO ANY ENTITY OR PERSON FOR DIRECT, INDIRECT, SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES, INCLUDING LOST PROFITS, ARISING OUT OF THE USE OF THIS SOFTWARE, EVEN IF INSTITUTION HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. INSTITUTION SPECIFICALLY DISCLAIMS ANY AND ALL WARRANTIES, EXPRESS AND IMPLIED, INCLUDING, BUT NOT LIMITED TO, ANY IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE SOFTWARE IS PROVIDED “AS IS.” INSTITUTION HAS NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS, OR MODIFICATIONS OF THIS SOFTWARE.
4. Any academic or scholarly publication arising from the use of this Software or any derivative works thereof will include the following acknowledgment:  The Software used in this research was created by [INSERT AUTHOR NAMES] of UC Riverside. © 2024 UCR.

Commercial entities: please contact mingxun.wang@cs.ucr.edu or tp@ucr.edu for licensing opportunities.

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