User:Daly
Contents
- 1 Overview
- 2 Tutorials
- 2.1 Getting Started
- 2.2 Loading Data
- 2.3 Working with Marker and Phenotype Panels
- 2.4 Visualize Gene Expression
- 2.5 Filter and Normalize Data
- 2.6 Clustering Gene Expression Data
- 2.7 Differential Expression
- 2.8 Regulatory Network
- 2.9 Integrated Annotation Information
- 2.10 Enrichment Analysis
- 2.11 Sequence Analysis
- 2.12 Pattern Discovery
- 2.13 Promoter Analysis
Overview
(who uses this , why/ what for? background )
caWorkbench 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. It provides biomedical researchers with a user-friendly software application that automates analysis of disparate data types. Some key caWorkbench features include: Support for a variety of genomic data including microarrays, sequences, pathways, networks, alignments and phenotypes. 。 Data loading from both local and remote sources. 。 Access to remote servers and clusters for the performance of computationally intensive calculations.
。 Integration of analyses with biological annotations from the National Cancer Institute.
Major areas of focus include:
- Microarray bbbbb
- another
- another thing
- yet another
Tutorials
The following { insert description)
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
