CCT pipeline

CCT specifications

Information


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

Download


Versioning


Add your version

Maintainers


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

Additional information


http://stothard.afns.ualberta.ca/downloads/CCT/creating_maps.html http://stothard.afns.ualberta.ca/downloads/CCT/commands.html http://stothard.afns.ualberta.ca/downloads/CCT/installation.html Tuto: http://stothard.afns.ualberta.ca/downloads/CCT/tutorials.html

Publication for CGView Comparison Tool

CCT IN pipelines

 (2)
2016
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 […]

2014
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

CCT reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review CCT