Kinetics analysis program

IOCBIO Kinetics is a cross-platform application for analysis of different traces, as described by its plugins. While originally developed for analysis of enzyme kinetics, the other types of traces can be analyzed as well. It is designed to analyze traces where some measured parameter depends on one other parameter, such as time or space. For example, respiration rate measurements via following oxygen concentration in time and its changes through addition of metabolites.

The analysis of experimental traces is built as a pipeline, with the data imported from the experiment file, regions of interest automatically generated or set by user, data fitted and analyzed. Communication between different plugins is done through the database backend with the analysis results stored in the database. Software is modular with the new modules added easily to fit the new types of experiments.

• User documenation: https://iocbio.gitlab.io/kinetics
• Issues: https://gitlab.com/iocbio/kinetics/issues
• Releases: https://gitlab.com/iocbio/kinetics/-/releases

Citations and software description

Software is described in a paper (see below) that gives a background information regarding use of the software and shows an example analysis of sparks. Please cite this paper if you use the software.

Vendelin, M., Laasmaa, M., Kalda, M., Branovets, J., Karro, N., Barsunova, K., & Birkedal, R. (2020). IOCBIO Kinetics: An open-source software solution for analysis of data traces. PLOS Computational Biology, 16(12), e1008475. https://doi.org/10.1371/journal.pcbi.1008475

Copyright

Copyright (C) 2018-2020 Laboratory of Systems Biology, Department of Cybernetics, School of Science, Tallinn University of Technology (https://sysbio.ioc.ee).

Software license: GPLv3, see LICENSE.

Contact: Marko Vendelin markov@sysbio.ioc.ee