Manuscripts describing BEDbase and geniml
Components of BEDbase and geniml have been published independently. Here, we showcase the tutorials organized by the manuscript that published them, so if you're reading a paper you can more easily find the relevant features. Find the citation of interest on the left to find links to tutorials published as part of each manuscript.
How to cite BEDbase and geniml
Thanks for citing us! If you use BEDbase, geniml, or their components in your research, here are papers you can cite.
If you use... | Please cite ... |
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region2vec embeddings |
Gharavi et al. (2021) Bioinformatics |
bedspace search and embeddings |
Gharavi et al. (2024) Bioengineering |
scEmbed single-cell embedding framework |
LeRoy et al. (2023) bioRxiv |
geniml region set evaluations |
Zheng et al. (2023) bioRxiv |
geniml hmm module |
Rymuza et al. (2023) bioRxiv |
bedbase database |
Unpublished |
Full citation information for manuscripts
Bioengineering. DOI: 10.3390/bioengineering11030263
bioRxiv. DOI: 10.1101/2023.08.28.555137
Frontiers in Genetics. DOI: 10.3389/fgene.2023.1155809
bioRxiv. DOI: 10.1101/2023.08.03.551899
bioRxiv. DOI: 10.1101/2023.08.01.551452
Genome Biology. DOI: 10.1186/s13059-021-02440-w
Bioinformatics. DOI: 10.1093/bioinformatics/btab439