The DOI matches its Crossref record; 6 of the 6 references it cites were found in a registry or an index.
Circlator: automated circularization of genome assemblies using long sequencing reads
Open accessAbstract
The assembly of DNA sequence data is undergoing a renaissance thanks to emerging technologies capable of producing reads tens of kilobases long. Assembling complete bacterial and small eukaryotic genomes is now possible, but the final step of circularizing sequences remains unsolved. Here we present Circlator, the first tool to automate assembly circularization and produce accurate linear representations of circular sequences. Using Pacific Biosciences and Oxford Nanopore data, Circlator correctly circularized 26 of 27 circularizable sequences, comprising 11 chromosomes and 12 plasmids from bacteria, the apicoplast and mitochondrion of Plasmodium falciparum and a human mitochondrion. Circlator is available at http://sanger-pathogens.github.io/circlator/ .
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The Sequence Alignment/Map format and SAMtools
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Versatile and open software for comparing large genomes
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Genome sequence of the human malaria parasite Plasmodium falciparum
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“We evaluated the circularization tools using data from the reference strain 3D7 [18].”
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Cited by
Robertson, J., & Nash, J. H. E. (2018) · Microbial Genomics · doi:10.1099/mgen.0.000206 · Cited by 1,013
Klemm, E. J., Shakoor, S., Page, A. J., Qamar, F. N., Judge, K., Saeed, D. K., Wong, V. K., Dallman, T. J., Nair, S., Baker, S., et al. (2018) · mBio · doi:10.1128/mbio.00105-18 · Cited by 640
Mutant phenotypes for thousands of bacterial genes of unknown function
Price, M. N., Wetmore, K. M., Waters, R. J., Callaghan, M., Ray, J., Liu, H., Kuehl, J. V., Melnyk, R. A., Lamson, J. S., Suh, Y., et al. (2018) · Nature · doi:10.1038/s41586-018-0124-0 · Cited by 576
Muñoz, J. F., Gade, L., Chow, N. A., Loparev, V. N., Juieng, P., Berkow, E. L., Farrer, R. A., Litvintseva, A. P., & Cuomo, C. A. (2018) · Nature Communications · doi:10.1038/s41467-018-07779-6 · Cited by 458
PACVr: plastome assembly coverage visualization in R
Gruenstaeudl, M., & Jenke, N. (2020) · BMC Bioinformatics · doi:10.1186/s12859-020-3475-0 · Cited by 341
Metadata
- Authors
- Hunt, M., Silva, N. D., Otto, T. D., Parkhill, J., Keane, J. A., & Harris, S. R.
- Venue
- Genome Biology
- Published
- 2015-12
- Volume
- 16
- Issue
- 1
- Pages
- 294-294
- ISSN
- 1465-6906 (ISSN-L)
- 1474-760X
- OpenAlex
- W2202810729
- Cited by
- 1,184
- References
- 6
- FWCI
- 17.75
- Type
- journal article
- Language
- en
- Open access
- gold
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- Hunt, M., Silva, N. D., Otto, T. D., Parkhill, J., Keane, J. A., & Harris, S. R. (2015). Circlator: automated circularization of genome assemblies using long sequencing reads. Genome Biology. https://doi.org/10.1186/s13059-015-0849-0
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