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caArray

Workflow Entry: caArray

Created at: 14/08/10 @ 06:02:00 Last updated: 14/08/10 @ 06:03:20

Version 1 (of 1)

Version created on: 14/08/10 @ 06:02:00 by: Wei Tan | Revision comments Expand

Last edited on: 14/08/10 @ 06:03:20 by: Wei Tan

Title: caArray

Type: Taverna 2

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Description

preprocess data before it is sent to any GenePattern services.

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Workflow Components

Authors (0)

Titles (0)

Descriptions (0)

Inputs (1)

Name	Description
rawData

Processors (18)

Name	Type	Description
dataXML1	xmlsplitter
preprocessDatasetParameterSetXML2	xmlsplitter
PreprocessDatasetParameterSetXML3	xmlsplitter
parametersXML13	xmlsplitter
preProcessTrainingData	wsdl
parametersXML14	xmlsplitter
ceiling	stringconstant
ct	stringconstant
filterFlag	stringconstant
lbt	stringconstant
msb	stringconstant
minChange	stringconstant
minD	stringconstant
n	stringconstant
numE	stringconstant
pFlag	stringconstant
pt	stringconstant
t	stringconstant

Beanshells (0)

Outputs (1)

Name	Description
processedData

Datalinks (19)

Source	Sink
rawData	dataXML1:Data
PreprocessDatasetParameterSetXML3:output	preprocessDatasetParameterSetXML2:PreprocessDatasetParameterSet
pFlag:value	PreprocessDatasetParameterSetXML3:preprocessingFlag
pt:value	PreprocessDatasetParameterSetXML3:probabilityThreshold
lbt:value	PreprocessDatasetParameterSetXML3:logBaseTwo
n:value	PreprocessDatasetParameterSetXML3:numberOfColumnsAboveThreshold
t:value	PreprocessDatasetParameterSetXML3:threshold
numE:value	PreprocessDatasetParameterSetXML3:numExclude
msb:value	PreprocessDatasetParameterSetXML3:maxSigmaBinning
minChange:value	PreprocessDatasetParameterSetXML3:minChange
minD:value	PreprocessDatasetParameterSetXML3:minDelta
ceiling:value	PreprocessDatasetParameterSetXML3:ceiling
filterFlag:value	PreprocessDatasetParameterSetXML3:filterFlag
ct:value	PreprocessDatasetParameterSetXML3:columnThreshold
dataXML1:output	parametersXML13:data
preprocessDatasetParameterSetXML2:output	parametersXML13:preprocessDatasetParameterSet
parametersXML13:output	preProcessTrainingData:parameters
preProcessTrainingData:parameters	parametersXML14:input
parametersXML14:Data	processedData

Coordinations (0)

Information Workflow Type

Taverna 2

Information Original Uploader

Wei Tan

Information License

All versions of this Workflow are licensed under:

Information Credits (1)

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Wei Tan

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Information Statistics

170 viewings

338 downloads

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Citations (0)

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Version History

Earliest Version:
[1] - caArray

Created on: Saturday 14 August 2010 @ 06:02:00 (GMT)

Created by: Wei Tan

Last edited on: Saturday 14 August 2010 @ 06:03:20 (GMT)

Last edited by: Wei Tan

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Taverna 2

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genePattern data preprocessing (v2)

Created: 24/05/10 @ 22:42:38 | Last updated: 24/05/10 @ 22:42:39

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License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Viewed: 59 times | Downloaded: 31 times

Tags (5):

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Original Uploader

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Lymphoma type prediction based on microarray data (v7)

Created: 11/05/10 @ 19:04:30 | Last updated: 11/05/10 @ 19:04:32

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License: Creative Commons Attribution-Share Alike 3.0 Unported License

Scientific value Using gene-expression patterns associated with DLBCL and FL to predict the lymphoma type of an unknown sample. Using SVM (Support Vector Machine) to classify data, and predicting the tumor types of unknown examples. Steps Querying training data from experiments stored in caArray. Preprocessing, or normalize the microarray data. Adding training and testing data into SVM service to get classification result.

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Viewed: 610 times | Downloaded: 235 times

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