Nucleosee – Visual Genome-wide search of Nucleosome Patterns

Nucleosee

:: DESCRIPTION

Nucleosome is web-based nucleosome map visual browser backed up by BWT-based pattern searches. It can be used for other kinds of high-throughput genomic data as well.

::DEVELOPER

The VisUsal (Visual Analytics and Information Visualization, Universidad de Salamanca) group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web browser

:: DOWNLOAD

Nucleosee

:: MORE INFORMATION

Citation

Santamaría, R., Therón, R., Durán, L., García, A., González, S., Sánchez, M., & Antequera, F. (2019).
Genome-wide search of nucleosome patterns using visual analytics.
Bioinformatics, 35(13), 2185-2192

VisRD 3.0 – Visual Recombination Detection Software package

VisRD 3.0

:: DESCRIPTION

VisRD is a software package allowing graphical inspection of the phylogenetic content of a sequence alignment, that is primarily intended for detection of recombination and recombination breakpoints.

::DEVELOPER

The UEA Computational Biology Laboratory at the University of East Anglia (UEA)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux/ Windows/MacOsX
Java

:: DOWNLOAD

VisRD

:: MORE INFORMATION

Citation

P. Lemey, M. Lott, D. P. Martin and V. Moulton,
Identifying recombinants in human and primate immunodeficiency virus sequence alignments using quartet scanning,
BMC bioinformatics (2009), 126-144

ivy – Interactive Visual Phylogenetics

ivy

:: DESCRIPTION

ivy is a Python module for the analysis and exploration of phylogenetic trees and comparative data.It is built on a powerful foundation of open-source software components, including numpy, scipy, matplotlib, and IPython.

::DEVELOPER

Richard Ree

:: SCREENSHOTS

:: REQUIREMENTS

Linux / Windows/MacOsX
Python
numpy, scipy, matplotlib, and IPython

:: DOWNLOAD

ivy

:: MORE INFORMATION