Difference between revisions of "DeMAND"
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DeMAND and its source code are released in geWorkbench under the [[DeMAND_License|DeMAND Software License]]. | DeMAND and its source code are released in geWorkbench under the [[DeMAND_License|DeMAND Software License]]. | ||
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| + | ==Data== | ||
| + | The expression dataset should contain at least six experimental and six control arrays. The experimental arrays should result from e.g. a drug perturbation. | ||
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| + | ==Analysis== | ||
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| + | |||
| + | ==Parameters== | ||
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| + | DeMAND_analysis.png | ||
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| + | * '''Select Service''' | ||
| + | ** '''Local Service''' - run DeMAND on an instance of R installed on the same machine as geWorkbench. | ||
| + | ** '''Web service''' - not yet implemented. Run DeMAND on a remote server. | ||
| + | |||
| + | * '''Load Network''' | ||
| + | ** '''From Workspace''' - select a network that has already been loaded into the Workspace as a child of the current expression dataset. | ||
| + | ** '''From File''' - load a network directly from disk. Networks can be in '''ADJ''' or '''SIF''' format. | ||
| + | |||
| + | * '''Drug Arrays/Control Arrays''' | ||
| + | ** '''From Set''' - Use a set of arrays already defined in the Arrays component. | ||
| + | ** '''From File''' - Load in a list of arrays, one to a line, from a file. | ||
| + | |||
| + | * '''Load Sample Information''' - (intended for internal lab use only) loads a the Drug and Control arrays from a special file that contains two lines, with each listing arrays to use by index number rather than by name. The first line starts with "Drug" and the second line with "Ctrl". | ||
Revision as of 16:57, 22 November 2013
DeMAND algorithm.
Page in preparation, should be available 11/22/2013.
DeMAND and its source code are released in geWorkbench under the DeMAND Software License.
Data
The expression dataset should contain at least six experimental and six control arrays. The experimental arrays should result from e.g. a drug perturbation.
Analysis
Parameters
DeMAND_analysis.png
- Select Service
- Local Service - run DeMAND on an instance of R installed on the same machine as geWorkbench.
- Web service - not yet implemented. Run DeMAND on a remote server.
- Load Network
- From Workspace - select a network that has already been loaded into the Workspace as a child of the current expression dataset.
- From File - load a network directly from disk. Networks can be in ADJ or SIF format.
- Drug Arrays/Control Arrays
- From Set - Use a set of arrays already defined in the Arrays component.
- From File - Load in a list of arrays, one to a line, from a file.
- Load Sample Information - (intended for internal lab use only) loads a the Drug and Control arrays from a special file that contains two lines, with each listing arrays to use by index number rather than by name. The first line starts with "Drug" and the second line with "Ctrl".
