Jstacs 2.2 – Java Framework for Statistical Analysis and Classification of Biological Sequences

Jstacs 2.2

:: DESCRIPTION

Jstacs is an open source Java library, which focuses on the statistical analysis of biological sequences instead. Jstacs comprises an efficient representation of sequence data and provides implementations of many statistical models with generative and discriminative approaches for parameter learning. Using Jstacs, classifiers can be assessed and compared on test datasets or by cross-validation experiments evaluating several performance measures.

::DEVELOPER

Jstacs Team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux/  MacOSX
  • Java

:: DOWNLOAD

 Jstacs

:: MORE INFORMATION

Citation

Michael Seifert, Marc Strickert, Alexander Schliep and Ivo Grosse
Exploiting prior knowledge and gene distances in the analysis of tumor expression profiles with extended Hidden Markov Models
Bioinformatics (2011) 27 (12): 1645-1652.

BioUML 0.9.8 – Open Source Java Framework for Systems Biology

BioUML 0.9.8

:: DESCRIPTION

BioUML is open source integrated Java platform for building virtual cell and virtual physiological human. It spans the comprehensive range of capabilities including access to databases with experimental data, tools for formalized description of biological systems structure and functioning, as well as tools for their visualization, simulation, parameters fitting and analyses. Due to scripts (R, JavaScript) and workflow support it provides powerful possibilities for analyses of high-throughput data.

::DEVELOPER

BioUML Team

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows/ Linux / Mac OsX
  • JAVA

:: DOWNLOAD

 BioUML

:: MORE INFORMATION

Citation

Adv Exp Med Biol. 2012;736:235-45. doi: 10.1007/978-1-4419-7210-1_13.
A modular model of the apoptosis machinery.
Kutumova EO1, Kiselev IN, Sharipov RN, Lavrik IN, Kolpakov FA.