:: DESCRIPTION
Circos is a software package for visualizing genome data and information. It visualizes data in a circular layout — this makes Circos ideal for exploring relationships between objects or positions.
::DEVELOPER
Canada’s Michael Smith Genome Sciences Centre
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Krzywinski, M. et al.
Circos: an Information Aesthetic for Comparative Genomics.
Genome Res (2009) 19:1639-1645
:: DESCRIPTION
XMatchView is a python application designed to visualize DNA sequence alignments.
::DEVELOPER
Canada’s Michael Smith Genome Sciences Centre
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
Melanie Viewer is made available free of charge to help researchers visualize gels and related data obtained through the use of the full version of Melanie by colleagues. It can also be used to view annotated gels from databases such as SWISS-2DPAGE, or any other image files with an appropriate format (.tif, .gel, …).
::DEVELOPER
The Proteome Informatics group
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
NAViGaTOR (Network Analysis, Visualization, & Graphing TORonto ) is a software package for visualizing and analyzing protein-protein interaction networks.NAViGaTOR can query OPHID / I2D – online databases of interaction data – and display networks in 2D or 3D. To improve scalability and performance, NAViGaTOR combines Java with OpenGL to provide a 2D/3D visualization system on multiple hardware platforms. NAViGaTOR also provides analytical capabilities and supports standard import and export formats such as GO and the Proteomics Standards Initiative (PSI).
::DEVELOPER
Jurisica Lab of the Ontario Cancer Institute
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2009 Dec 15;25(24):3327-9. doi: 10.1093/bioinformatics/btp595. Epub 2009 Oct 16.
NAViGaTOR: Network Analysis, Visualization and Graphing Toronto.
Brown KR1, Otasek D, Ali M, McGuffin MJ, Xie W, Devani B, Toch IL, Jurisica I.
Djebbari, A., Ali, M., Otasek, D., Kotlyar. M., Fortney, K., Wong, S., Hrvojic, A. and Jurisica, I.
NAViGaTOR: Scalable and Interactive Navigation and Analysis of Large Graphs.
Internet Mathematics, 7(4):314-347, 2011
:: DESCRIPTION
GsmPlot is a web service to automatically download, analyze and visualize epigenetics data (ChIP-Seq, ATAC-Seq, Bis-Seq), public from NCBI or private from you.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation:
BMC Bioinformatics, 21 (1), 55 2020 Feb 12
GsmPlot: A Web Server to Visualize Epigenome Data in NCBI
Jia Li , Yue Yin , Mutian Zhang , Jie Cui , Zhenhai Zhang , Zhiyong Zhang , Deqiang Sun
:: DESCRIPTION
The REPuter program family provides state of the art software solutions to compute and visualize repeats in whole genomes or chromosomes.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
S. Kurtz, J. V. Choudhuri, E. Ohlebusch, C. Schleiermacher, J. Stoye, R. Giegerich:
REPuter: The Manifold Applications of Repeat Analysis on a Genomic Scale.
Nucleic Acids Res., 29(22):4633-4642, 2001.
:: DESCRIPTION
KGML-ED supports the dynamic exploration and editing of KEGG Pathway diagrams. It is a graphical network editor, that provides read- and write-support for the KGML (KEGG Markup Language) file format. Pathway files are loaded and transformed into a graph network which may be modified to fulfill user-specific needs (e.g. it is possible, to delete or add network elements, change labels and colors). Novel network exploration approaches are supported by the system as well.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Christian Klukas and Falk Schreiber
Dynamic exploration and editing of KEGG pathway diagrams.
Bioinformatics 2007 23: 344-350.
:: DESCRIPTION
Circoletto is a rather beautiful way to visualise sequence similarity from BLAST results (which you can either create through Circoletto, or upload your own).
::DEVELOPER
The Bioinformatics Analysis Team
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Bioinformatics. 2010 Oct 15;26(20):2620-1. Epub 2010 Aug 24.
Circoletto: visualizing sequence similarity with Circos.
Darzentas N.
:: DESCRIPTION
Haploscope is a software package that facilitates flexible rendering of images to aid interpretation of model-based summaries of population haplotypes. Haploscope is designed to accept haplotype frequency input directly from output files of fastPHASE (Scheet & Stephens, 2006), though output from other cluster-based models for population haplotypes could be adapted for input to Haploscope.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
San Lucas, F. A., Rosenberg, N. A. and Scheet, P. (2012),
Haploscope: a tool for the graphical display of haplotype structure in populations.
Genetic Epidemiology, 36: 17-21. doi: 10.1002/gepi.20640.
:: DESCRIPTION
SURFNET is a software to generate surfaces, and void regions between surfaces, from coordinate data supplied in a PDB file.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Laskowski R A (1995).
SURFNET: A program for visualizing molecular surfaces, cavities and intermolecular interactions.
J. Mol. Graph., 13,323-330.