Bioinformatics Workbench
for Genome analysis
Bioinformatics Workbench
for Genome analysis
Saima
Noureen
Research Associate
Department of Biosciences
COMSATS Institute of Information Technology
Islamabad, Pakistan
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Bioinformatics Workbench: User-Defined Pipelines & Toolkit for Genome Analysis, Slides of Bioinformatics
The development of a bioinformatics workbench for genome analysis, which supports the execution of user-defined pipelines and toolkit using various programming languages and tools integrated. The system includes features like simple task definition, transactional management, and notifications. Tools integrated include orf finder, blast, clustalw, and various bioinformatics pipelines.
Typology: Slides
2014/2015
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Bioinformatics Workbench
for Genome analysis
Bioinformatics Workbench
for Genome analysis
Saima Noureen Research Associate Department of Biosciences COMSATS Institute of Information Technology Islamabad, Pakistan
Content
INTRODUCTI
ON
INTRODUCTI
ON
- (^) Genome
- (^) Bioinformatics pipelines
- (^) Workflows
- (^) Challenges and aim of project METHODOL OGY
METHODOL
OGY
- (^) System configuration
- (^) Programming Languages
- (^) Tools integrated
- (^) Architecture RESULTS^ RESULTS
- (^) Home
- (^) Toolkit
- (^) User defined workflows
- (^) Example workflows
- (^) Novelty and future
Computational AnnotationComputational Annotation
ORF Finder ORF Finder BLAST BLAST Clustal W Clustal W Tree Genera tor Tool Tree Genera tor Tool
Features of pipelinesFeatures of pipelines
- (^) Simple definition of tasks to run
- (^) Transactional management of tasks
- (^) Automatic connection of pipeline stages
- (^) Notifications by instant message
Strategies used by the systemsStrategies used by the systems
Challenges to develop pipelinesChallenges to develop pipelines
Aim of the projectAim of the project
Development of a system supporting the execution of the user defined bioinformatics pipelines and tool kit for genome analysis.
MaterialsMaterials
- (^) System configuration
- (^) Programming languages
- (^) Tools
- (^) Framework
System configurationSystem configuration
- (^) Operating system
- (^) Linux
- (^) Ubuntu
Tools integratedTools integrated
- (^) Open reading frame tools
- (^) Similarity search tools
- (^) Alignment tools
- (^) Protein tools
- (^) Sequence analysis tools
- (^) Phylogeny tools
- (^) Format conversion tools
FrameworkFramework
- (^) Codeigniter (^) Application development framework