CCT pipeline

CCT specifications


Unique identifier OMICS_19852
Name CCT
Alternative name CGView Comparison Tool
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Perl, Shell (Bash)
Computer skills Advanced
Stability Stable
Requirements Blast, Java, ImageMagick, BioPerl
Maintained Yes



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  • person_outline Paul Stothard <>
  • person_outline Jason Grant <>
  • person_outline Adriano Arantes <>

Additional information Tuto:

Publication for CGView Comparison Tool

CCT IN pipelines

PMCID: 4978470
PMID: 27505001
DOI: 10.1371/journal.pone.0160554

[…] of each strain was identified and then the pairwise average similarity was determined. the genome comparison and the circular representation of this analysis were performed using the described cgview comparison tool program [19]. to investigate in details the genetic differences between hv and lv strains, count software [20] was used with tree_3strains and the corresponding matrix […]

PMCID: 4274889
PMID: 26038504
DOI: 10.1038/emi.2014.78

[…] viewer (cgview) server.35,36, a comparison of whole genomes from l. santarosai serovar shermani and previously published pathogenic leptospira spp. was performed by the mauve alignment system, the cgview comparison tool and blastp analysis.37 previously published leptospira spp. sequences were downloaded from the ncbi and the accession numbers of the genome sequences are listed in table 1. […]

CCT institution(s)
Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AL, Canada; Bioinformatics Laboratory, National Microbiology Laboratory, University of Manitoba, Winnipeg, MB, Canada; Department of Medical Microbiology, University of Manitoba, Winnipeg, MB, Canada

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