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caArray data retrieving

Workflow Entry: caArray data retrieving

Created at: 23/11/09 @ 18:09:47

Version 1 (of 1)

Version created on: 23/11/09 @ 18:09:48 by: Wei Tan | Revision comments Expand

Title: caArray data retrieving

Type: Taverna 2

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Description

Query all the gene expression data in a caArray experiment. Returns a evenly divided gene expression data set with corresponding class information. They ca be later used as training and test data set in many classification algorithms.

Query all the gene expression data in a caArray experiment. Returns a evenly divided gene expression data set with corresponding class information. They can be later used as training and test data set in many classification algorithms.

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http://www.myexperiment.org/workflows/963/download?version=1
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Workflow Components

Authors (1)

Titles (1)

Descriptions (2)

Inputs (1)

Name	Description
EXP_ID	The id of the experiment in NCI caArray database. See https://array.nci.nih.gov/caarray/. Returns a evenly The id of the experiment in NCI caArray database. See https://array.nci.nih.gov/caarray/. Returns a evenly divided gene expression data set with corresponding class information. They ca be later used as training and test data set in many classification algorithms. The id of the experiment in NCI caArray database. See https://array.nci.nih.gov/caarray/ The id of the experiment in NCI caArray database. The id of the experiment in NCI caArray database. See https://array.nci.nih.gov/caarray/.

Processors (6)

Name	Type	Description
searchForHybridizations	wsdl
Beanshell	beanshell
Beanshell2	beanshell
getDataSet	wsdl
getDataSet_input	xmlsplitter
Beanshell3	beanshell

Beanshells (3)

Name	Inputs	Outputs
Beanshell	expid	searchHyb
Beanshell2	i	result o
Beanshell3	i	testClass trainingClass testDataString trainingDataString

Outputs (4)

Name	Description
testClass
trainingClass
trainingData
testData

Datalinks (10)

Source	Sink
Beanshell:searchHyb	searchForHybridizations:parameters
EXP_ID	Beanshell:expid
searchForHybridizations:parameters	Beanshell2:i
getDataSet_input:output	getDataSet:parameters
Beanshell2:o	getDataSet_input:dataSetRequest
getDataSet:parameters	Beanshell3:i
Beanshell3:testClass	testClass
Beanshell3:trainingClass	trainingClass
Beanshell3:trainingDataString	trainingData
Beanshell3:testDataString	testData

Coordinations (0)

Information Workflow Type

Taverna 2

Information Original Uploader

Wei Tan

Information License

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Information Credits (1)

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Wei Tan

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Information Tags (8)

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Information Statistics

410 viewings

534 downloads

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Citations (0)

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Version History

Earliest Version:
[1] - caArray data retrieving

Created on: Monday 23 November 2009 @ 18:09:48 (GMT)

Created by: Wei Tan

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Jiazhan...	Thursday 19 August 2010 @ 16:16:16 (GMT)
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Dreamsi...	Thursday 19 August 2010 @ 20:45:20 (GMT)
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Dreamsi...	Thursday 19 August 2010 @ 21:32:16 (GMT)
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Other workflows that use similar services (1)

Taverna 2

Original Uploader

Wei Tan

Lymphoma type prediction based on microarray data (v7)

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

Credits: Wei Tan Ravi Stian Soiland-Reyes

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.

Rating: 5.0 / 5 (1 rating) | Versions: 7 | Reviews: 0 | Comments: 0 | Citations: 3

Viewed: 610 times | Downloaded: 235 times

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