Tag: Multithread

HSimulator 1.0 – Multithread Hybrid stochastic/deterministic simulation of Biochemical Reaction Networks

HSimulator 1.0

:: DESCRIPTION

HSimulator is an optimized, multithread Java simulator compatible with Java 6.0 or higher versions. The simulator works both in terminal and in a graphical environment thanks to an ad hoc GUI.

::DEVELOPER

The Microsoft Research – University of Trento Centre for Computational and Systems Biology

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux/ MacOsX
  • JRE

:: DOWNLOAD

HSimulator

:: MORE INFORMATION

Citation

L. Marchetti, R. Lombardo, C. Priami.
HSimulator: Hybrid Stochastic/Deterministic Simulation of Biochemical Reaction Networks, Complexity, Volume 2017, Article ID 1232868, DOI: 10.1155/2017/1232868, 2017.

iTree 2 – Scalable Multithreaded Phylogenomic Pipeline

iTree 2

:: DESCRIPTION

iTree is  an open-source phylogenomic pipeline, which automates the execution of phylogenetic analyses under multithreaded and grid-computing environments, providing a scalable high-throughput platform for performing genome-wide evolutionary analyses. Furthermore, we describe the results of two applications of using iTree: (1) taxonomic assignment of 16S ribosomal RNA sequences from human oral metagenomic samples and (2) detection of horizontal gene transfer in microbial genomes.

::DEVELOPER

Ahmed Moustafa

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 iTree

:: MORE INFORMATION

Citation:

Moustafa, A.; Bhattacharya, D.; Allen, A.E.;
iTree: A high-throughput phylogenomic pipeline
Biomedical Engineering Conference (CIBEC), 2010 5th Cairo International