Difference between revisions of "Information Panel"
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In this tutorial, you will learn how use three components: | In this tutorial, you will learn how use three components: | ||
| − | *Dataset History. | + | *Dataset History (automatically generated). |
| − | *Dataset Annotation. | + | *Dataset Annotation (user-added text). |
| − | *Experiment Information. | + | *Experiment Information (taken from input files). |
Revision as of 18:56, 20 December 2006
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Home | Quick Start | Basics | Menu Bar | Preferences | Component Configuration Manager | Workspace | Information Panel | Local Data Files | File Formats | caArray | Array Sets | Marker Sets | Microarray Dataset Viewers | Filtering | Normalization | Tutorial Data | geWorkbench-web Tutorials |
Analysis Framework | ANOVA | ARACNe | BLAST | Cellular Networks KnowledgeBase | CeRNA/Hermes Query | Classification (KNN, WV) | Color Mosaic | Consensus Clustering | Cytoscape | Cupid | DeMAND | Expression Value Distribution | Fold-Change | Gene Ontology Term Analysis | Gene Ontology Viewer | GenomeSpace | genSpace | Grid Services | GSEA | Hierarchical Clustering | IDEA | Jmol | K-Means Clustering | LINCS Query | Marker Annotations | MarkUs | Master Regulator Analysis | (MRA-FET Method) | (MRA-MARINa Method) | MatrixREDUCE | MINDy | Pattern Discovery | PCA | Promoter Analysis | Pudge | SAM | Sequence Retriever | SkyBase | SkyLine | SOM | SVM | T-Test | Viper Analysis | Volcano Plot |
Outline
In this tutorial, you will learn how use three components:
- Dataset History (automatically generated).
- Dataset Annotation (user-added text).
- Experiment Information (taken from input files).
Overview
geWorkbench provides several mechanisms by which experiment information can be viewed and added.
Dataset History
The Dataset History component is located in the Command and Analysis Area. It is used to log the data transformations applied by operations such as the application of filters, normalizers, etc. For example, when a dataset in the Project Folders is normalized, the Dataset History for that dataset is updated to record that event. Dataset histories are part of the workspace and are persisted when the workspace is saved with their pertinent dataset. Data in the Dataset History pane is non-editable.
Dataset Annotation
The Dataset Annotation pane allows users to attach comments to Project Folders nodes. The pane is located in the Command and Analysis Area. A user first selects the node of interest in the Project Folders tree and then enters the desired annotation (in the form of free text) in the Dataset Annotation pane. Annotations are persisted along with their corresponding Project Folder nodes when the workspace is saved.
Experiment Information
The Experiment Info panel is located in the Command and Analysis Area. This non-editable component allows for viewing experiment information associated with a Microarray dataset. What constitutes "experiment information" varies depending on the source of the microarray dataset. E.g., for Affymetrix MAS5 files the file preamble (the part just before the data lines which provides various experiment execution parameters) becomes the experiment information.
