Accession Number : ADA480822


Title :   A Tool for Creating and Parallelizing Bioinformatics Pipelines


Descriptive Note : Conference paper


Corporate Author : BIOTECHNOLOGY HPC SOFTWARE APPLICATIONS INST FORT DETRICK MD


Personal Author(s) : Yu, Chenggang ; Wilson, Paul A


Full Text : http://www.dtic.mil/dtic/tr/fulltext/u2/a480822.pdf


Report Date : Jun 2007


Pagination or Media Count : 7


Abstract : Bioinformatics pipelines enable life scientists to effectively analyze biological data through automated multi-step processes constructed by individual programs and databases. The huge amount of data and time consuming computations require effectively parallelized pipelines to provide results within a reasonable time. Considerable programming effort is needed for both integrating individual programs into a pipeline and parallelizing them. The object of our Bioinformatics Pipeline Generation and Parallelization Toolkit (BioGent) is to reduce researchers programming burden. A user only needs to create a pipeline definition file that describes the data processing sequence and input/output files. Program termed schedpipe in BioGent toolkit takes the definition file and executes the designed procedure.


Descriptors :   *PARALLEL PROCESSING , *BIOMEDICAL INFORMATION SYSTEMS , DATA BASES , SOFTWARE ENGINEERING , COMPUTER NETWORKS , DATA FUSION , SYMPOSIA


Subject Categories : Ecology
      Computer Programming and Software
      Computer Systems


Distribution Statement : APPROVED FOR PUBLIC RELEASE