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README.md

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**Fulgor** is a *colored de Bruijn graph* index for large-scale matching and color queries, powered by [SSHash](https://github.com/jermp/sshash) and [GGCAT](https://github.com/algbio/GGCAT).
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The Fulgor index is described in the following papers:
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The Fulgor index is described in the following papers.
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- [**Fulgor: A Fast and Compact k-mer Index for Large-Scale Matching and Color Queries**](https://almob.biomedcentral.com/articles/10.1186/s13015-024-00251-9) (Algorithms for Molecular Biology, ALMOB 2024), and
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- [**Meta-colored compacted de Bruijn graphs**](https://link.springer.com/chapter/10.1007/978-1-0716-3989-4_9) (International Conference on Research in Computational Molecular Biology, RECOMB 2024).
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- [**Where the patterns are: repetition-aware compression for colored de Bruijn graphs**](https://www.liebertpub.com/doi/10.1089/cmb.2024.0714) (Journal of Computational Biology, JCB 2024).
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- [**Fast pseudoalignment queries on compressed
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colored de Bruijn graphs**](https://jermp.github.io/assets/pdf/papers/WABI2025.pdf) (International Conference on Algorithms for Bioinformatics, WABI 2025).
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Please, cite these papers if you use Fulgor.
2020

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