Package ubic.gemma.core.loader.expression

Class AffyPowerToolsProbesetSummarize

java.lang.Object

ubic.gemma.core.loader.expression.AffyPowerToolsProbesetSummarize

public class AffyPowerToolsProbesetSummarize
extends Object

Author:

paul

Field Summary

Fields

Modifier and Type	Field	Description
protected static final String	GEO_CEL_FILE_NAME_REGEX	Look for patterns like GSM476194_SK_09-BALBcJ_622.CEL or GSM289913.CEL.gz or GSM1525415_C1.cel.gz and not GSM12343.EXP.gz

Method Summary

Modifier and Type	Method	Description
protected Map<String,Map<String,String>>	loadMpsNames()
static BioAssay	matchBioAssayToCelFileName(Map<String,BioAssay> bmap, String fileName)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

GEO_CEL_FILE_NAME_REGEX

protected static final String GEO_CEL_FILE_NAME_REGEX

Look for patterns like GSM476194_SK_09-BALBcJ_622.CEL or GSM289913.CEL.gz or GSM1525415_C1.cel.gz and not GSM12343.EXP.gz

See Also:

• Constant Field Values

Method Details

matchBioAssayToCelFileName

public static BioAssay matchBioAssayToCelFileName(Map<String,BioAssay> bmap,
 String fileName)

Parameters:

bmap - bMap

fileName - file name

Returns:

BioAssay, or null if not found.

loadMpsNames

protected Map<String,Map<String,String>> loadMpsNames()

Returns:

Map of GPLXXXX to {mps, pgc, qcc, clf} to file name