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STRique

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Nanopore raw signal repeat detection pipeline

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# STRique

*STRique is no longer maintained!   
It may still work in py3.6 and py3.7 virtual environments as long as the ONT fast5 format is not changed.*

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STRique is a python package to analyze repeat expansion and methylation states of short tandem repeats (STR) in Oxford Nanopore Technology (ONT) long read sequencing data.

Please refer to the **[documentation](https://strique.readthedocs.io/en/latest/)** for installation and usage instructions.

To get started the **[installation](https://strique.readthedocs.io/en/latest/installation/prerequisites/)** chapter describes the available installation options depending on the operation system and already existing environments.

In the **[Usage](https://strique.readthedocs.io/en/latest/examples/intro/)** chapter the stepwise analysis of nanopore reads covering repeat expansions is demonstrated.

## Citation

If you use STRique in your work please cite:

> Giesselmann, P., Brändl, B., Raimondeau, E. et al. Analysis of short tandem repeat expansions and their methylation state with nanopore sequencing. Nat Biotechnol (2019) doi:10.1038/s41587-019-0293-x

STRique

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