The DOI matches its Crossref record; 10 of the 10 references it cites were found in a registry or an index.
pyGenomeTracks: reproducible plots for multivariate genomic datasets
Open accessAbstract
Motivation: Generating publication ready plots to display multiple genomic tracks can pose a serious challenge. Making desirable and accurate figures requires considerable effort. This is usually done by hand or using a vector graphic software. Results: pyGenomeTracks (PGT) is a modular plotting tool that easily combines multiple tracks. It enables a reproducible and standardized generation of highly customizable and publication ready images. Availability and implementation: PGT is available through a graphical interface on https://usegalaxy.eu and through the command line. It is provided on conda via the bioconda channel, on pip and it is openly developed on github: https://github.com/deeptools/pyGenomeTracks. Supplementary information: Supplementary data are available at Bioinformatics online.
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Robinson, J. T., Thorvaldsdóttir, H., Winckler, W., Guttman, M., Lander, E. S., Getz, G., & Mesirov, J. P. (2011) · Nature Biotechnology · doi:10.1038/nbt.1754 · Cited by 15,390
HiGlass: web-based visual exploration and analysis of genome interaction maps
Kerpedjiev, P., Abdennur, N., Lekschas, F., McCallum, C., Dinkla, K., Strobelt, H., Luber, J. M., Ouellette, S. B., Azhir, A., Kumar, N., et al. (2018) · Genome Biology · doi:10.1186/s13059-018-1486-1 · Cited by 2,453
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update
Afgan, E., Baker, D., van den Beek, M., Blankenberg, D., Bouvier, D., Čech, M., Chilton, J., Clements, D., Coraor, N., Eberhard, C., et al. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkw343 · Cited by 2,148
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The Bioconda Team, Grüning, B., Dale, R., Sjödin, A., Chapman, B. A., Rowe, J., Tomkins-Tinch, C. H., Valieris, R., & Köster, J. (2018) · Nature Methods · doi:10.1038/s41592-018-0046-7 · Cited by 1,641
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Chen, X., Miragaia, R. J., Natarajan, K. N., & Teichmann, S. A. (2018) · Nature Communications · doi:10.1038/s41467-018-07771-0 · Cited by 1,147
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Ramírez, F., Bhardwaj, V., Arrigoni, L., Lam, K. C., Grüning, B. A., Villaveces, J., Habermann, B., Akhtar, A., & Manke, T. (2018) · Nature Communications · doi:10.1038/s41467-017-02525-w · Cited by 999
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Gehlenborg, N., O'Donoghue, S. I., Baliga, N. S., Goesmann, A., Hibbs, M. A., Kitano, H., Kohlbacher, O., Neuweger, H., Schneider, R., Tenenbaum, D., et al. (2010) · Nature Methods · doi:10.1038/nmeth.1436 · Cited by 620
Impact of transposable elements on genome structure and evolution in bread wheat
International Wheat Genome Sequencing Consortium, Wicker, T., Gundlach, H., Spannagl, M., Uauy, C., Borrill, P., Ramírez-González, R. H., De Oliveira, R., Mayer, K. F. X., Paux, E., et al. (2018) · Genome Biology · doi:10.1186/s13059-018-1479-0 · Cited by 334
Li, L., Lyu, X., Hou, C., Takenaka, N., Nguyen, H. Q., Ong, C.-T., Cubeñas-Potts, C., Hu, M., Lei, E. P., Bosco, G., et al. (2015) · Molecular Cell · doi:10.1016/j.molcel.2015.02.023 · Cited by 319
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Bhardwaj, V., Heyne, S., Sikora, K., Rabbani, L., Rauer, M., Kilpert, F., Richter, A. S., Ryan, D. P., & Manke, T. (2019) · Bioinformatics · doi:10.1093/bioinformatics/btz436 · Cited by 196
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Metadata
- Authors
- Lopez-Delisle, L., Rabbani, L., Wolff, J., Bhardwaj, V., Backofen, R., Grüning, B., Ramírez, F., & Manke, T.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2020-08-03
- Volume
- 37
- Issue
- 3
- Pages
- 422-423
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W3046950215
- Cited by
- 531
- References
- 10
- FWCI
- 13.35
- Type
- journal article
- Language
- en
- Open access
- hybrid
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