SnoopCGH Beta – Visualise and Explore Comparative Genomic Hybridization (CGH) data

SnoopCGH Beta

:: DESCRIPTION

SnoopCGH is a java desktop application for visualising and exploring comparative genomic hybridization (CGH) data. The software allows the user to interactively analyse several sets of data simultaneously. The input is based on a tab-, space- or comma-delimited format, containing series of log intensity values corresponding to one or more comparisons or samples.

::DEVELOPER

PathogenSeq

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux/windows /MacOsX
  • Java

:: DOWNLOAD

  SnoopCGH

:: MORE INFORMATION

Citation

Bioinformatics. 2009 Oct 15;25(20):2732-3. Epub 2009 Aug 16.
SnoopCGH: software for visualizing comparative genomic hybridization data.
Almagro-Garcia J, Manske M, Carret C, Campino S, Auburn S, Macinnis BL, Maslen G, Pain A, Newbold CI, Kwiatkowski DP, Clark TG.

 

AgileVariantMapper 20160629 – Visualise Sequence Variant data from Whole Exome Data

AgileVariantMapper 20160629

:: DESCRIPTION

AgileVariantMapper visualises sequence variant data from whole exome data, so that it is possible to identify autozygous regions in consanguineous individuals.

::DEVELOPER

Ian’s DNA@Leeds

:: SCREENSHOTS

AgileVariantMapper

:: REQUIREMENTS

  • Windows
  • Microsoft .NET framework version 2.0 

:: DOWNLOAD

 AgileVariantMapper

:: MORE INFORMATION

Citation

Carr IM, Bhaskar S, O’Sullivan J, Aldahmesh MA, Shamseldin HE, Markham AF, Bonthron DT, Black G, Alkuraya FS.
Autozygosity mapping with exome sequence data.
Hum Mutat. 2013 Jan;34(1):50-6. doi: 10.1002/humu.22220. Epub 2012 Oct 22. PMID: 23090942.

ChIPMonk 1.2.3 – Visualise and Analyse ChIP-on-chip Array data

ChIPMonk 1.2.3

:: DESCRIPTION

ChIPMonk is a program designed to help in the visualisation and analysis of ChIP-on-chip array data. It provides a comprehensive set of tools to import, normalise, analyse and visualise your data.

:: DEVELOPER

Babraham Bioinformatics

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / Mac OsX/Windows
  • Java 

:: DOWNLOAD

 ChIPMonk

:: MORE INFORMATION

CoCo v2.0.1 – Search, Visualise and Store different data associated with Gene Expression

CoCo v2.0.1

:: DESCRIPTION

CoCo (ChIP-on-Chip online) is a computational tool that allows the user to search, visualise and store different data associated with gene expression.

::DEVELOPER

The Furlong Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ WIndows/MacOsX
  • Java
  • Ant
  • Tomcat
  • MySQL
  • R
  • BioConductor

:: DOWNLOAD

 CoCo

:: MORE INFORMATION

Citation

Bioinformatics. 2007 Mar 15;23(6):771-3. Epub 2007 Jan 17.
CoCo: a web application to display, store and curate ChIP-on-chip data integrated with diverse types of gene expression data.
Girardot C, Sklyar O, Grosz S, Huber W, Furlong EE.

Evoker 2.2 – Graphical Tool for Visualising Genotype Intensity data

Evoker 2.2

:: DESCRIPTION

Evoker is a graphical tool for visualizing genotype intensity data in order to assess genotype calls as part of quality control procedures for genome-wide association studies.

::DEVELOPER

James Morris or Jeff Barrett.

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / MacOsX / Windows
  • Java

:: DOWNLOAD

 Evoker

:: MORE INFORMATION

Citation

Evoker: a visualization tool for genotype intensity data.
Morris JA, Randall JC, Maller JB and Barrett JC
Bioinformatics (Oxford, England) 2010;26;14;1786-7

JNets 1.0 – Visualise, Manipulate and Analyze Networks by Overlaying Annotation

JNets 1.0

:: DESCRIPTION

JNets is a network visualization and analysis tool. JNets was primarily designed for visualizing and analyzing protein interaction networks, but is flexible enough to be used for any type of network. JNets is available as a stand alone application or an applet. Using the applet, interactive networks can be deployed from web pages.

::DEVELOPER

Jamie MacPherson

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux / MacOsX / Windows
  • Java

:: DOWNLOAD

 JNets 

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2009 Mar 26;10:95.
JNets: exploring networks by integrating annotation.
Macpherson JI, Pinney JW, Robertson DL.

SNIPPEEP r1 – Visualise Results from whole Genome Genotyping

SNIPPEEP r1

:: DESCRIPTION

SnipPeep is an interactive graphic interface to visualise results from whole genome genotyping. It allows one to visualise single subjects and groups of subjects, and provides a direct connection with the UCSC Genome Browser.

::DEVELOPER

Roberto Toro, (email: rto@pasteur.fr), Thomas Bourgeron (email: thomasb@pasteur.fr)

:: SCREENSHOTS

:: REQUIREMENTS

  • Linux /  Windows / MacOsX
  • C Compiler
:: DOWNLOAD

 SNIPPEEP

:: MORE INFORMATION