Name
Title | ||
|---|---|---|
OrthoSearch: a scientific workflow approach to detect distant homologies on protozoans |
Abstract | ||
|---|---|---|
Managing bioinformatics experiments is challenging due to the orchestration and interoperation of tools with semantics. An effective approach for managing those experiments is through workflow management systems (WfMS). We present several WfMS features for supporting genome homology workflows and discuss relevant issues for typical genomic experiments. In our evaluation we used OrthoSearch, a real genomic pipeline originally defined as a Perl script. We modeled it as a scientific workflow and implemented it on Kepler WfMS. We show a case study detecting distant homologies on trypanomatids metabolic pathways. Our results reinforce the benefits of WfMS over script languages and point out challenges to WfMS in distributed environments. |
Year | DOI | Venue |
|---|---|---|
2008 | 10.1145/1363686.1363983 | SAC |
Keywords | Field | DocType |
typical genomic experiment,kepler wfms,perl script,workflow management system,wfms feature,distant homology,bioinformatics experiment,script language,scientific workflow,case study,scientific workflow approach,real genomic pipeline,distributed environment,scripting language,bioinformatics,metabolic pathway | World Wide Web,Workflow technology,Software engineering,Computer science,Interoperation,Workflow engine,Workflow,Workflow management system,Orchestration (computing),Perl,Scripting language | Conference |
Citations | PageRank | References |
5 | 0.44 | 11 |
Authors | ||
10 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Sergio Manuel Serra Da Cruz | 1 | 65 | 3.95 |
| Vanessa Batista | 2 | 9 | 0.86 |
| Alberto M. R. Dávila | 3 | 83 | 5.35 |
| Edno Silva | 4 | 9 | 0.86 |
| Frederico Tosta | 5 | 12 | 1.23 |
| Clarissa Vilela | 6 | 9 | 0.86 |
| Maria Luiza M. Campos | 7 | 90 | 7.49 |
| Rafael R. C. Cuadrat | 8 | 15 | 1.63 |
| Diogo A. Tschoeke | 9 | 15 | 1.63 |
| Marta Mattoso | 10 | 1287 | 109.83 |