Revision as of 15:27, 14 February 2006

Overview

'(who uses this , why/ what for? background )

geWorkbench is an open-source bioinformatics platform that offers a comprehensive and extendible collection of tools for the management, analysis, visualization and annotation of biomedical data.

Benefits include:

Integrates with existing bioinformatics modules for analysis and visualization.
Support for a variety of genomic data including microarrays, sequences, pathways, networks, alignments and phenotypes.
Access to remote servers and clusters for the performance of computationally intensive calculations.
Integration of analyses with biological annotations from the National Cancer Institute.
Flexible import options: allows user to merge files from various sources.
Community: decribe this aspect
developer benefit

Intro graphic

Tutorials

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Getting Started

Starting the application
GUI elements
- Panels
- Navigation

Loading Data

Data formats

Working with Marker and Phenotype Panels

Creating panels
Visualizing

Visualize Gene Expression

Filter and Normalize Data

Clustering Gene Expression Data

Hierarchical Clustering
Self Organizing Map (SOM)

Differential Expression

T Test
Multi Test
- Volcano Plot
- Color Mosaic

Regulatory Network

Reverse Engineering
Cytoscape

Integrated Annotation Information

Enrichment Analysis

Go Term
- Go Miner

Sequence Analysis

Sequence Retrieval
Sequence Homology Analysis
- Blast
- Other

Pattern Discovery

Position Histogram

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 Intro graphic
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 = Tutorials=

geWorkbench

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