Civi

http://civi.cmbi.ru.nl/help.html

Methods

circular single view single scale single focus contiguous no abstraction no arrangement no interconnection segment sparse type segment contiguous type point sparse type point contiguous type

Tool

Access Format web application
Supported Files other
License unavailable
Tool name

Civi
Tool Link http://civi.cmbi.ru.nl
Documentation http://civi.cmbi.ru.nl/help.html

Paper

CiVi: circular genome visualization with unique features to analyze sequence elements.

Overmars L, van Hijum SAFT, Siezen RJ, Francke C. CiVi: circular genome visualization with unique features to analyze sequence elements. Bioinformatics. academic.oup.com; 2015;31: 2867–2869.

Abstract

We have developed CiVi, a user-friendly web-based tool to create custom circular maps to aid the analysis of microbial genomes and sequence elements. Sequence related data such as gene-name, COG class, PFAM domain, GC%, and subcellular location can be comprehensively viewed. Quantitative gene-related data (e.g. expression ratios or read counts) as well as predicted sequence elements (e.g. regulatory sequences) can be uploaded and visualized. CiVi accommodates the analysis of genomic elements by allowing a visual interpretation in the context of: (i) their genome-wide distribution, (ii) provided experimental data and (iii) the local orientation and location with respect to neighboring genes. CiVi thus enables both experts and non-experts to conveniently integrate public genome data with the results of genome analyses in circular genome maps suitable for publication.