MochiView 1.46 – Genomic Sequences Browser

MochiView 1.46

:: DESCRIPTION

MochiView is Java software that integrates browsing of genomic sequences, features, and data with DNA motif visualization and analysis

::DEVELOPER

the Johnson Lab

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / MacOsX /  Linux
  • Java

:: DOWNLOAD

 MochiView

:: MORE INFORMATION

Citation

Oliver R Homann and Alexander D Johnson
MochiView: versatile software for genome browsing and DNA motif analysis
BMC Biology 2010, 8:49

Artemis v18.0.3 – Genome Browser and Annotation Tool

Artemis v18.0.3

:: DESCRIPTION

Artemis is a free genome browser and annotation tool that allows visualisation of sequence features, next generation data and the results of analyses within the context of the sequence, and also its six-frame translation.

::DEVELOPER

the Sanger Institute

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / MacOsX /  Linux
  • Java

:: DOWNLOAD

Artemis

:: MORE INFORMATION

Citation

Rutherford K, Parkhill J, Crook J, Horsnell T, Rice P, Rajandream MA and Barrell B
Artemis: sequence visualization and annotation.
Bioinformatics (Oxford, England) 2000;16;10;944-5

Wasabi 20151112 – Powerful Multiple Sequence Alignment Browser

Wasabi 20151112

:: DESCRIPTION

Wasabi is a tool for visualisation and manipulation of rich MSAs and a graphical interface to command-line programs.

::DEVELOPER

Löytynoja Lab

:: SCREENSHOTS

Wasabi

:: REQUIREMENTS

  • Linux/ Windows /MacOsX
  • Java

:: DOWNLOAD

 Wasabi

:: MORE INFORMATION

Citation

Wasabi: An Integrated Platform for Evolutionary Sequence Analysis and Data Visualization.
Veidenberg A, Medlar A, Löytynoja A.
Mol Biol Evol. 2016 Apr;33(4):1126-30. doi: 10.1093/molbev/msv333.

GenoViewer 0.9.0 – Viewer/Browser for the Sam/Bam format

GenoViewer 0.9.0

:: DESCRIPTION

GenoViewer is a comprehensive and open source viewer/browser for the sam/bam format commonly used in the assembly tasks of Next Generation Sequencing data.

::DEVELOPER

Astrid Research, Inc.

:: SCREENSHOTS

GenoViewer

:: REQUIREMENTS

  • Windows / Linux / MacOsX
  • Java 

:: DOWNLOAD

 GenoViewer

:: MORE INFORMATION

Citation

Bioinformation. 2012;8(2):107-9. Epub 2012 Jan 20.
Geno viewer, a SAM/BAM viewer tool.
Laczik M, Tukacs E, Uzonyi B, Domokos B, Doma Z, Kiss M, Horváth A, Batta Z, Maros-Szabó Z, Török Z.

PyBamView 1.0.7 – Browser-based application for Visualizing Complex Bam Alignments

PyBamView 1.0.7

:: DESCRIPTION

PyBamView is a python-based application that allows you to view BAM sequence alignments through your web browser.

::DEVELOPER

Melissa Gymrek

:: SCREENSHOTS

pybamview

:: REQUIREMENTS

:: DOWNLOAD

  PyBamView

:: MORE INFORMATION

Citation:

Bioinformatics. 2014 Aug 21. pii: btu565. [Epub ahead of print]
PyBamView: a browser based application for viewing short read alignments.
Gymrek M.

Insyght – Conserved Synteny Homolog Browser

Insyght

:: DESCRIPTION

Insyght is a browser that helps navigate among abundant homologies, syntenies and genes annotations.

::DEVELOPER

Insyght team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Synchronized navigation and comparative analyses across Ensembl complete bacterial genomes with INSYGHT.
Lacroix T, Thérond S, Rugeri M, Nicolas P, Gendrault A, Loux V, Gibrat JF.
Bioinformatics. 2015 Nov 24. pii: btv689.

GOTreePlus 20080131 – Interactive Gene Ontology Browser

GOTreePlus 20080131

:: DESCRIPTION

GOTreePlus is an interactive gene ontology visualization tool that can superimpose annotation information over gene ontology structures. GOTreePlus can facilitate the identification of important GO terms while visualizing them in the gene ontology structure. The interactive pie chart summary for a selected gene ontology term provides users with a succinct overview of their experimental results.

::DEVELOPER

GOTreePlus Team

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows
  • Microsoft .NET Framework 2.0

:: DOWNLOAD

 GOTreePlus

:: MORE INFORMATION

Citation

Bongshin Lee, Kristy Brown, Yetrib Hathout, and Jinwook Seo,
GOTreePlus: An Interactive Gene Ontology Browser,”
Bioinformatics (2008) 24 (7): 1026-1028.

RNAbrowse 1.4 – RNA-Seq de novo Assembly Results Browser

RNAbrowse 1.4

:: DESCRIPTION

RNAbrowse permits sequencing facilities and, even small, bioinformatic teams to give a user-friendly access to RNA-Seq de novo results, helping biologists to analyse and extract meaningful information from their data.

::DEVELOPER

RNAbrowse team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • JavaScript

:: DOWNLOAD

  RNAbrowse

:: MORE INFORMATION

Citation

RNAbrowse: RNA-Seq de novo assembly results browser.
Mariette J, Noirot C, Nabihoudine I, Bardou P, Hoede C, Djari A, Cabau C, Klopp C.
PLoS One. 2014 May 13;9(5):e96821. doi: 10.1371/journal.pone.0096821.

Krona 2.5 – Hierarchical Data Browser

Krona 2.5

:: DESCRIPTION

Krona allows the hierarchical results of metagenomic classifications to be explored visually in a web browser. Charts are created by KronaTools, which supports many metagenomic tools and generic file formats. Once charts are created, they can be viewed on any platform with a recent version of any major browser.

::DEVELOPER

Brian D Ondov ondovb@nbacc.net, Nicholas H Bergman and Adam M Phillippy ,National Biodefense Analysis and Countermeasures Center

:: SCREENSHOTS

Krona

:: REQUIREMENTS

  • Linux/ MacOsX
  • Perl

:: DOWNLOAD

 Krona

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2011 Sep 30;12:385. doi: 10.1186/1471-2105-12-385.
Interactive metagenomic visualization in a Web browser.
Ondov BD, Bergman NH, Phillippy AM.

PopGeV 1.1 – Web-based Large-scale Population Genome Browser

PopGeV 1.1

:: DESCRIPTION

PopGeV is a web-based browser that can conveniently show the results of population analysis.

::DEVELOPER

PopGeV team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • WEb browser

:: DOWNLOAD

 PopGeV

:: MORE INFORMATION

Citation

PopGeV: A Web-based Large-scale Population Genome Browser.
Shi X, Peng J, Yu X, Zhang X, Li D, Liu B, Kong F, Yuan X.
Bioinformatics. 2015 May 21. pii: btv324.