OrthoCluster pipeline

OrthoCluster specifications

Information


Unique identifier OMICS_11720
Name OrthoCluster
Interface Web user interface
Restrictions to use None
Input data OrthoCluster receives two types of input files: the genome file and the correspondence file.
Computer skills Basic
Stability Stable
Maintained Yes

Information


Unique identifier OMICS_11720
Name OrthoCluster
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data OrthoCluster receives two types of input files: the genome file and the correspondence file.
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for OrthoCluster

OrthoCluster IN pipelines

 (2)
2018
PMCID: 5807335
PMID: 29459888
DOI: 10.3389/fcimb.2018.00020

[…] number nc_024384.1) and vb_lmos_293 (genbank accession number nc_028929.1), respectively, while contig_3 contained an incomplete prophage. they are bacteriophages of the siphoviridae family orthocluster iv which have already been described as l. monocytogenes phages (denes et al., 2014; casey et al., 2015). phages from this cluster are typically between 38 and 41 kb long and have gc […]

2014
PMCID: 4169385
PMID: 25232843
DOI: 10.1371/journal.pgen.1004660

[…] protein coding sequences from nudivirus-gene containing regions of c. congregata [27], [41], [95]. groups of orthologous genes (syntenic) in the genome were identified using the orthomcl output with orthocluster [96]. syntenic regions were viewed with gbrowse syn. assembly of the m. demolitor genome initially suggested the nudivirus-like gene cluster contained two identical duplications absent […]

OrthoCluster institution(s)
Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada

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