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DetectionP v.1
Detection P value, Percent P call, Preprocess and Utilities   kojima   10/27/2011    
This module assesses whether a given signal intensity measured by microarray is significantly higher than background signal due to non-specific...
0

ExpressCluster
Clustering, gene expression, k-means, microarray, Visualizer   Scott Davis   11/15/2011    
Interactive/GUI-based K-means clustering Quickly and easily cluster genes by their expression profiles across any number of conditions. With a full...
5

ExpressCluster RC1
Clustering, Visualizer   GenePatternTeam   08/01/2011    
Interactive GUI-based K-Means clustering of gene expression profiles. • Input: GCT (can add RES support if needed). • Input: CLS (optional...
0

GCTforIGV v.2.4
gct, IGV, Preprocess and Utilities   kevyin   09/02/2011    
Format a GCT file to be readable by the Integrative Genome Viewer (IGV). TIP: The module "ReannotateGCT" will annotate a GCT to a format...
0

GeneListToKDAList v.6
SAGE   ted   04/25/2011    
Converts the gene list output by ComparativeMarkerSelection to the format used by the SAGE Key Driver Analysis module
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LogTransform v.3.3
gct, Log Transformation, Preprocess and Utilities   kevyin   09/01/2011    
Apply a log base 2 transformation to data from a GCT file.
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LoocvSurvival v.1
Gene List Selection, Prediction, Survival Analysis   hoshida   10/21/2011    
 Leave-one-out cross-validation (LOOCV)-type prediction based on time-to-event clinical outcome. Select genes robustly correlated with time-to-...
0

NormalizeColumns v.4.3
gct, Preprocess and Utilities   kevyin   09/01/2011    
Apply a (quantile, scale, or Znorm) normalization on a GCT file. Note: To write to .png; R with Xlib or cairo support is required. Otherwise a .pdf...
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ReannotateGCT v.7.3
Annotation, chip, gct   kevyin   09/02/2011    
Fills the Description column of a GCT file with information from a CHIP file Note: Chip file drop down menu will not work. See documentation for more...
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ReorderGCT v.6.4
gct, Preprocess and Utilities   kevyin   09/02/2011    
Reorder a GCT by sorting on a property such as the gene symbol, average expression level, sum and variance TIP: For "gene symbol"; the...
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