MZmine and MS-DIAL
Open-source software for mass spectrometry
Open-source software for mass spectrometry
Mass spectrometry is an analytical technique that measures the mass and abundance of small molecules with very high precision. However, the datasets produced by mass spectrometry instruments are complex and multi-dimensional. MZmine (https://mzmine.org; implemented in Java and JavaFX) and MS-DIAL (http://prime.psc.riken.jp/compms/msdial/main.html; implemented in C#) are popular open-source graphical software tools for mass spectrometry data processing. Both contain a library of processing algorithms and powerful visualization modules.
Both MZmine and MS-DIAL are highly cited (>4500 cumulated citations in Pluskal et al., BMC Bioinformatics 2010 and Tsugawa et al., Nature Methods 2015) demonstrating the impact the software tools have in the biomedical research community.
MZmine 3 is based on JavaFX for its user interface and provides support for cutting-edge techniques such as ion mobility separation. We aim to provide user-friendly, flexible, and extendable modular software covering the entire mass spectrometry data analysis workflow.
MS-DIAL 5 follows the mind of MZmine, and the program is written by C# and WPF. As the unique functions, the program supports the chromatogram deconvolution for data independent acquisition. Furthermore, MS-DIAL 5 also supports the annotation function for various mass fragmentation techniques, mass spectrometry imaging, and proteomics, resulting in the environment for multiomics analysis.
MZmine successfully participated in Google Summer of Code in the years 2017, 2018, and 2019 under the OpenChemistry umbrella, and in 2020 and 2022 as its own organization. Now both MZmine and MS-DIAL projects team up for GSoC 2023.
Contributor Guidance
Projects
Contributor
Miguel Robles
Mentor
Olena Mokshyna
Organization
MZmine and MS-DIAL
Million scale nearest neighbor search for mass spectra using different spectral representations
In this project, we will aim to develop algorithms that can effectively and efficiently search large-scale mass spectral databases to improve further...