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With figeno, you can plot various types of sequencing data along genomic coordinates. Video overview: https://www.youtube.com/watch?v=h1cBeXoSYTA.
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Example figures generated with figeno. Left: allele-specific methylation with nanopore data. Right: HiC data across a structural rearrangement. See more examples [here](https://figeno.readthedocs.io/en/latest/content/examples.html)
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Example figures generated with figeno. Left: allele-specific methylation with nanopore data. Right: HiC data across a structural rearrangement. See more examples [here](https://figeno.readthedocs.io/en/latest/content/examples.html).
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## Features
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- Large collection of tracks (bigwig, HiC, alignments with base modifications, WGS with copy numbers and SV…)
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Download figeno_windows.zip from https://github.com/CompEpigen/figeno/releases/latest, unzip it and launch the graphical user interface by executing `figeno.exe`.
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## Documentation
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For more information on how to use figeno, please read the documentation at:
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https://figeno.readthedocs.io/en/latest/
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For more information on how to use figeno, please read the documentation at
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https://figeno.readthedocs.io/en/latest/.
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## Test data
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Example input files to test figeno are provided in [test_data](https://github.com/CompEpigen/figeno/tree/main/test_data).
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If you encounter a bug or would like to have a new feature added, please do not hesitate to [raise an issue](https://github.com/CompEpigen/figeno/issues/new) or to [contact me directly](https://www.dkfz.de/en/CanEpi/staff/kontakt/Sollier_Etienne.php). You can also provide feedback by completing this [anonymous form](https://forms.gle/xb9Ygk6zsJCJUQYm9), which would help me improve figeno!
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## Citation
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If you use figeno in your research, we would appreciate it if you would cite the manuscript describing figeno:
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If you use figeno in your research, please consider citing:
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Etienne Sollier, Jessica Heilmann, Clarissa Gerhauser, Michael Scherer, Christoph Plass, Pavlo Lutsik. Figeno: multi-region genomic figures with long-read support. [doi:10.1101/2024.04.22.590500](https://doi.org/10.1101/2024.04.22.590500).
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Etienne Sollier, Jessica Heilmann, Clarissa Gerhauser, Michael Scherer, Christoph Plass, Pavlo Lutsik. Figeno: multi-region genomic figures with long-read support, Bioinformatics 2024. [https://doi.org/10.1093/bioadv/vbae031](https://doi.org/10.1093/bioadv/vbae031)
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