title: C-Sibelia: an easy-to-use and highly accurate tool for bacterial genome comparison.
abstract: We present C-Sibelia, a highly accurate and easy-to-use software tool for comparing two closely related bacterial genomes, which can be presented as either finished sequences or fragmented assemblies. C-Sibelia takes as input two FASTA files and produces: (1) a VCF file containing all identified single nucleotide variations and indels; (2) an XMFA file containing alignment information. The software also produces Circos diagrams visualizing high level genomic architecture for rearrangement analyses. C-Sibelia is a part of the Sibelia comparative genomics suite, which is freely available under the GNU GPL v.2 license at http://sourceforge.net/projects/sibelia-bio. C-Sibelia is compatible with Unix-like operating systems. A web-based version of the software is available at http://etool.me/software/csibelia.
authors.affiliation: Bioinformatics Institute, St. Petersburg, Russian Federation.
authors.forename: Ilya
authors.initials: I
authors.lastname: Minkin
authors.affiliation: GNT Incorporation, HoChiMinh City, Vietnam.
authors.forename: Hoa
authors.initials: H
authors.lastname: Pham
authors.affiliation: Bioinformatics Institute, St. Petersburg, Russian Federation.
authors.forename: Ekaterina
authors.initials: E
authors.lastname: Starostina
authors.affiliation: Bioinformatics Institute, St. Petersburg, Russian Federation.
authors.forename: Nikolay
authors.initials: N
authors.lastname: Vyahhi
authors.affiliation: Computer Science and Engineering, University of California San Diego, La Jolla, 92092, USA.
authors.forename: Son
authors.initials: S
authors.lastname: Pham
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