Support
********************************************************


We work hard to ensure that **circtools** is a powerful tool empowering your research. However, no software is free of bugs and issues, therefore we would love to get feedback from our users.

Report issues via GitHub
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There are different options file an issues with out circRNA related software. Whenever possible please try to provide as much information as possible - this help to quickly assess the problem and fix it. Especially helpful are

* Software versions used
* Log files
* The command line used to call the software
* Sample data files in order to reproduce the error
* Temporary files that may contain pointers to fix the issues

Please use the following GitHub link to file your issue:

`Click here to file a circtools issues <https://github.com/jakobilab/circtools/issues>`_


Via Mail
^^^^^^^^^^^

If you do not have a GitHub account you can also reach use via mail: `circtools@jakobilab.org <mailto:circtools@jakobilab.org>`_


Literature
----------

* circtools circRNA software suite: `Jakobi, T., Uvarovskii, A., & Dieterich, C. (2019). circtools—a one-stop software solution for circular RNA research. Bioinformatics, 35(13), 2326-2328. <https://academic.oup.com/bioinformatics/article/35/13/2326/5194340>`_

* circRNAs in human cardiovascular cell models and cardiac tissue : `Jakobi, T., Siede, D., Eschenbach, J., Heumüller, A.W., Busch, M., Nietsch, R., Meder, B., Most, P., Dimmeler, S., Backs, J. and Katus, H.A., 2020. Deep characterization of circular RNAs from human cardiovascular cell models and cardiac tissue. Cells, 9(7), p.1616. <https://www.mdpi.com/2073-4409/9/7/1616>`_

* circRNAs in murine hearts: `Jakobi, T., Czaja-Hasse, L.F., Reinhardt, R. and Dieterich, C., 2016. Profiling and validation of the circular RNA repertoire in adult murine hearts. Genomics, proteomics & bioinformatics, 14(4), pp.216-223. <https://www.sciencedirect.com/science/article/pii/S167202291630033X>`_

* circtools circRNA analysis workflow: `Jakobi, T. and Dieterich, C., 2018. Deep Computational Circular RNA Analytics from RNA-seq Data. In Circular RNAs (pp. 9-25). Humana Press, New York, NY. <https://link.springer.com/protocol/10.1007/978-1-4939-7562-4_2>`_

* ``circtools reconstruct`` / FUCHS: `Metge, F., Czaja-Hasse, L.F., Reinhardt, R. and Dieterich, C., 2017. FUCHS—towards full circular RNA characterization using RNAseq. PeerJ, 5, p.e2934. <https://peerj.com/articles/2934/>`_

* ``circtools detect`` / DCC: `Cheng, J., Metge, F. and Dieterich, C., 2015. Specific identification and quantification of circular RNAs from sequencing data. Bioinformatics, 32(7), pp.1094-1096. <https://academic.oup.com/bioinformatics/article-abstract/32/7/1094/1743588>`_