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matteodelucchi committed Jun 14, 2021
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Some of TRAL's functions depend on external software ([Installation instructions for dependencies]). This includes creation of sequence profile hidden Markov models, alignment of tandem repeat units, and *de novo* repeat detection.

### Citation

Delucchi, M., Näf, P., Bliven, S., & Anisimova, M. (2021). [TRAL 2.0: Tandem Repeat Detection with Circular Profile Hidden Markov Models and Evolutionary Aligner](https://www.frontiersin.org/articles/10.3389/fbinf.2021.691865). *Frontiers in Bioinformatics*, DOI: 10.3389/fbinf.2021.691865

E Schaper, A Korsunsky, J Pecerska, A Messina, R Murri, H Stockinger, S Zoller, I Xenarios, and M Anisimova (2015). [TRAL: Tandem Repeat Annotation Library](http://bioinformatics.oxfordjournals.org/content/early/2015/05/17/bioinformatics.btv306.abstract). *Bioinformatics*. DOI: 10.1093/bioinformatics/btv306

[documented on GitHub IO]:https://acg-team.github.io/tral/
[docker image]:https://github.com/acg-team/tral/packages
[easy_setup]:https://github.com/acg-team/tral/tree/develop/easy_setup
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