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Synteny visualization software tools | Comparative genomics

Information on multiple synteny between plants and/or within a plant is key information to understand genome evolution. In addition, visualization of multiple synteny is helpful in interpreting evolution.Source text:(Baek et al., 2016) MultiSyn: A…
Circos
Desktop
Web

Circos

Displays large volumes of genomic rearrangement data. Circos is a visualization…

Displays large volumes of genomic rearrangement data. Circos is a visualization tool that applies a circular ideogram layout to display relationships between genomic intervals. The software provides…

Sybil
Web

Sybil

Provides a feature-rich set of comparative genomics tools for inspection of…

Provides a feature-rich set of comparative genomics tools for inspection of multiple genome structures, mining of orthologous gene families and identification of potential vaccine candidates. The…

Synteny Portal
Web

Synteny Portal

Simplifies studies on comparative genomics. Synteny Portal is an online…

Simplifies studies on comparative genomics. Synteny Portal is an online application offering easy construction of synteny blocks, intuitive graphical representation with a high-quality image format…

INSYGHT
Web

INSYGHT

A comparative genomic visualization tool that combines three complementary…

A comparative genomic visualization tool that combines three complementary displays: (i) a table for thoroughly browsing amongst homologues, (ii) a comparator of orthologue functional annotations and…

SimpleSynteny
Web
Desktop

SimpleSynteny

A web-based platform capable of directly interrogating collinearity of local…

A web-based platform capable of directly interrogating collinearity of local genomic neighbors across multiple species in a targeted manner. SimpleSynteny provides a pipeline for evaluating the…

SynMap3D
Web

SynMap3D

Allows to compare synteny between three genomes in a 3D environment. SynMap3D…

Allows to compare synteny between three genomes in a 3D environment. SynMap3D is a web-based whole-genome synteny browser that both identifies and visualizes regions of synteny. Results are displayed…

SynView
Desktop

SynView

Allows visual comparison of genome data. SynView is a light-weight, interactive…

Allows visual comparison of genome data. SynView is a light-weight, interactive and customizable comparative genomic visualization tool based on the GBrowse framework. The software can read mapping…

CGDV
Web

CGDV Circos for Genomics and Transcriptomics Data Visualization

Provides automated and guided generation of circular visualization of large…

Provides automated and guided generation of circular visualization of large scale genomics and transcriptomics data. CGDV provides prepackaged karyotype files for various model organisms and…

GBrowse_syn
Desktop

GBrowse_syn Generic Synteny Browser

A GBrowse-based synteny browser designed to display multiple genomes, with a…

A GBrowse-based synteny browser designed to display multiple genomes, with a central reference species compared to two or more additional species.

MizBee
Desktop

MizBee

A multiscale synteny browser for exploring conservation relationships in…

A multiscale synteny browser for exploring conservation relationships in comparative genomics data.

SynteView
Dataset

SynteView

Offers a repository allowing to visualize synteny data. SynteView provides the…

Offers a repository allowing to visualize synteny data. SynteView provides the results of orthology and neighborhood data calculation and authorizes comparisons, in a single window, between different…

MultiSyn
Desktop

MultiSyn

Allows multiple synteny determination and visualization between user’s…

Allows multiple synteny determination and visualization between user’s genomic data and/or published plant genome data. MultiSyn allows users to set regions of interest of species against the 18…

Aequatus
Desktop

Aequatus

A standalone web-based tool that provides an in-depth view of gene structure…

A standalone web-based tool that provides an in-depth view of gene structure across gene families, with various options to render and filter visualisations. Aequatus relies on pre-calculated…

ArkMAP
Web

ArkMAP

Allows users to align and draw genetic and genomic maps. ArkMAP is developed as…

Allows users to align and draw genetic and genomic maps. ArkMAP is developed as a tool for general biologists rather than for expert bioinformaticians. It provides the integration of personal mapping…

SynBrowse
Desktop

SynBrowse Synteny Browser

A generic sequence comparison tool for visualizing genome alignments both…

A generic sequence comparison tool for visualizing genome alignments both within and between species.

GSV
Web

GSV Genome Synteny Viewer

An option for biologists to analyze genome synteny by uploading their own data…

An option for biologists to analyze genome synteny by uploading their own data set to a web-based comparative genome browser. Allows users to upload two data files for synteny visualization, the…

mGSV
Web

mGSV multi-Genome Synteny Viewer

A web-based synteny visualization tool that enhances the original…

A web-based synteny visualization tool that enhances the original functionalities of GSV by allowing biologists to upload their own datasets and visualize the synteny among multiple genomes…

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