ABCGrid: Application for Bioinformatics Computing Grid

Ying Sun; Shuqi Zhao; Huashan Yu; Ge Gao; Jingchu Luo

doi:10.1093/bioinformatics/btm086

ABCGrid: Application for Bioinformatics Computing Grid

Bioinformatics. 2007 May 1;23(9):1175-7. doi: 10.1093/bioinformatics/btm086. Epub 2007 Mar 7.

Authors

Ying Sun¹, Shuqi Zhao, Huashan Yu, Ge Gao, Jingchu Luo

Affiliation

¹ Center for Bioinformatics, National Laboratory of Plant Genetic Engineering and Protein Engineering and College of Life Sciences, Peking University, Beijing, PR China.

PMID: 17344235
DOI: 10.1093/bioinformatics/btm086

Abstract

We have developed a package named Application for Bioinformatics Computing Grid (ABCGrid). ABCGrid was designed for biology laboratories to use heterogeneous computing resources and access bioinformatics applications from one master node. ABCGrid is very easy to install and maintain at the premise of robustness and high performance. We implement a mechanism to install and update all applications and databases in worker nodes automatically to reduce the workload of manual maintenance. We use a backup task method and self-adaptive job dispatch approach to improve performance. Currently, ABCGrid integrates NCBI_BLAST, Hmmpfam and CE, running on a number of computing platforms including UNIX/Linux, Windows and Mac OS X.

Availability: The source code, executables and documents can be downloaded from http://abcgrid.cbi.pku.edu.cn

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Computational Biology / methods*
Computing Methodologies*
Databases, Genetic*
Information Storage and Retrieval / methods*
Internet*
Software*
Systems Integration