Hello, Could anyone help me identify the format of this microarray data file? Here are the first few lines: TYPE text text text text text integer integer float float float float float text float float float float float float text text integer float float float float float float float float text text integer float float float float float float float integer float integer text text integer float float integer text text integer integer float float integer float text text integer float float float float integer text text text text text text text text FEPARAMS FeatureExtractor_UserName FeatureExtractor_ComputerName FeatureExtractor_ExtractionTime SpotFinder SpotFinder_Version SpotFinder_NumRows SpotFinder_NumCols SpotFinder_DevLimit SpotFinder_ROIW SpotFinder_ROIH SpotFinder_NomSpotWidth SpotFinder_NomSpotHeight CornerMethod CornerUL_x CornerUL_y CornerUR_x CornerUR_y CornerLL_x CornerLL_y CalcSpotStats CalcSpotStats_Version CalcSpotStats_RejectMethod CalcSpotStats_StatBoundFeat CalcSpotStats_StatBoundBG CalcSpotStats_CookieWidth CalcSpotStats_CookieHeight CalcSpotStats_BGInnerWidth CalcSpotStats_BGInnerHeight CalcSpotStats_BGOuterWidth CalcSpotStats_BGOuterHeight OutlierFlagger OutlierFlagger_Version OutlierFlagger_NonUnifOLOn OutlierFlagger_FeatATerm OutlierFlagger_FeatBTerm OutlierFlagger_FeatCTerm OutlierFlagger_BGATerm OutlierFlagger_BGBTerm OutlierFlagger_BGCTerm OutlierFlagger_ConfIntPValue OutlierFlagger_PopnOLOn OutlierFlagger_IQRatio OutlierFlagger_MinPopulation BGSubtractor BGSubtractor_Version BGSubtractor_BGSubMethod BGSubtractor_MaxPVal BGSubtractor_WellAboveMulti BGSubtractor_BackgroundCorrectionOn DyeNorm DyeNorm_Version DyeNorm_SelectMethod DyeNorm_CorrMethod DyeNorm_RankTolerance DyeNorm_LOWESSSmoothFactor DyeNorm_LOWESSNumSteps DyeNorm_LOWESSDelta Ratio Ratio_Version Ratio_ErrorModel Ratio_AddErrorRed Ratio_AddErrorGreen Ratio_MultErrorRed Ratio_MultErrorGreen Ratio_UseSurrogates FeatureExtractor FeatureExtractor_Version FeatureExtractor_ArrayName FeatureExtractor_ScanFileName FeatureExtractor_ScanFileGUID FeatureExtractor_Barcode FeatureExtractor_DesignFileName FeatureExtractor_PrintingFileName DATA Administrator AGILENT_SCANNER Friday, May 21, 2004 13:36:01 14f32760-122b-11d3-a2d2-080009b996f0 Version A.6.1.1 Sep 11 2002 16:45:52 119 156 6. 17.27415 18. 9. 9. Manual Lock Corners 35.7460789453694 28.5232645165563 2280.7885295609 45.2267119316202 23.210547849786 1798.37437653287 0b39b733-1912-11d3-a2d4-080009b996f0 Version A.6.1.1 Sep 11 2002 16:46:08 3 1.42 1.42 5.85 5.85 10.8 10.8 90. 90. abfc1cb9-f631-11d4-83d0-0010b5093402 Version A.6.1.1 Sep 11 2002 16:48:13 1 5.e-002 320. 600. 9.e-002 320. 600. 1.e-003 1 1.42 15 82594834-4ac3-11d3-a4b8-00108302b7fe Version A.6.1.1 Sep 11 2002 16:47:00 5 1.e-002 2.6 1 eef493ec-9143-11d3-a4e6-00108302b7fe Version A.6.1.1 Sep 11 2002 16:47:20 6 1 5.e-002 0.25 2 0. de2375cb-7605-11d3-a4e1-00108302b7fe Version A.6.1.1 Sep 11 2002 16:47:49 0 30. 30. 9.e-002 9.e-002 1 4da119ff-f377-11d2-a2c8-080009b996f0 Version A.6.1.1 Sep 11 2002 16:49:03 RedPMT30 _16000526007828_S01_A02 D:\Penny\RedPMT30 _16000526007828_S01_A02 efe74bc5-ab11-11d8-a817-000103e1c41f 16000526007828_A02 E:\\000526_d_20030121.xml E:\\000526_P_866_20030918.xml * TYPE float float float integer float float float integer integer float float integer float float integer integer float float integer float float integer integer integer integer integer float float float float integer integer integer integer float float float float float float float float float float float integer float integer float float float float float STATS gDarkOffsetAverage gDarkOffsetMedian gDarkOffsetStdDev gDarkOffsetNumPts rDarkOffsetAverage rDarkOffsetMedian rDarkOffsetStdDev rDarkOffsetNumPts gNumSatFeat gLocalBGInlierAve gLocalBGInlierSDev gLocalBGInlierNum gGlobalBGInlierAve gGlobalBGInlierSDev gGlobalBGInlierNum rNumSatFeat rLocalBGInlierAve rLocalBGInlierSDev rLocalBGInlierNum rGlobalBGInlierAve rGlobalBGInlierSDev rGlobalBGInlierNum gNumFeatureNonUnifOL gNumPopnOL gNumNonUnifBGOL gNumPopnBGOL gOffsetUsed gGlobalFeatInlierAve gGlobalFeatInlierSDev gGlobalFeatInlierNum rNumFeatureNonUnifOL rNumPopnOL rNumNonUnifBGOL rNumPopnBGOL rOffsetUsed rGlobalFeatInlierAve rGlobalFeatInlierSDev rGlobalFeatInlierNum AllColorPrcntSat AnyColorPrcntSat AnyColorPrcntFeatNonUnifOL AnyColorPrcntBGNonUnifOL AnyColorPrcntFeatPopnOL AnyColorPrcntBGPopnOL TotalPrcntFeatOL gNumNegBGSubFeat gBGAdjust rNumNegBGSubFeat rBGAdjust gLinearDyeNormFactor rLinearDyeNormFactor DyeNormDimensionlessRMS DyeNormUnitWeightedRMS DATA 23.677 24 4.70738 1000 23.97 24 6.44354 1000 0 276.944 18.3738 10855 276.944 18.3738 10855 0 197.602 17.5954 12570 197.602 17.5954 12570 90 9 125 2322 117.818 613.491 291.313 13087 144 12 197 605 76.0909 694.52 445.697 13030 0 0 1.0999 1.50193 0.0986118 19.5858 1.09116 87 15.9298 40 -9.31923 3.92258 2.37225 0.206798 0.0402023 * TYPE integer integer integer text text text integer integer text text text text float float float float float float float boolean boolean float float float float integer integer integer integer integer integer float float float float float float integer integer float float float float float float integer integer boolean boolean float float boolean boolean boolean boolean boolean boolean boolean boolean boolean float float float float float boolean boolean float float integer integer boolean boolean float float float float float boolean float float float float float integer FEATURES FeatureNum Row Col Pass unigene_code Zone ProbeUID ControlType ProbeName GeneName SystematicName Description PositionX PositionY LogRatio LogRatioError PValueLogRatio gSurrogateUsed rSurrogateUsed gIsFound rIsFound gProcessedSignal rProcessedSignal gProcessedSigError rProcessedSigError gNumPixOLHi rNumPixOLHi gNumPixOLLo rNumPixOLLo gNumPix rNumPix gMeanSignal rMeanSignal gMedianSignal rMedianSignal gPixSDev rPixSDev gBGNumPix rBGNumPix gBGMeanSignal rBGMeanSignal gBGMedianSignal rBGMedianSignal gBGPixSDev rBGPixSDev gNumSatPix rNumSatPix gIsSaturated rIsSaturated PixCorrelation BGPixCorrelation gIsFeatNonUnifOL rIsFeatNonUnifOL gIsBGNonUnifOL rIsBGNonUnifOL gIsFeatPopnOL rIsFeatPopnOL gIsBGPopnOL rIsBGPopnOL IsManualFlag gBGSubSignal rBGSubSignal gBGSubSigError rBGSubSigError BGSubSigCorrelation gIsPosAndSignif rIsPosAndSignif gPValFeatEqBG rPValFeatEqBG gNumBGUsed rNumBGUsed gIsWellAboveBG rIsWellAboveBG IsUsedBGAdjust gBGUsed rBGUsed gBGSDUsed rBGSDUsed IsNormalization gDyeNormSignal rDyeNormSignal gDyeNormError rDyeNormError DyeNormCorrelation ErrorModel DATA 1 1 1 -1 1 0 1 Fiducial Fiducial Fiducial Fiducial 32.1844 25.4037 -0.100347 0.0656086 0.126144 0 0 1 1 600.495 476.609 24.0597 18.9299 0 1 0 0 27 27 496 437.593 497 442 31.6617 39.4883 163 163 324.939 248.65 324 243 15.6634 26.3367 0 0 0 0 0.324885 0.000418385 0 0 0 0 0 0 0 0 0 155.132 198.262 6.21557 7.87453 0.307392 1 1 9.66082e-021 1.04613e-021 1 1 1 1 0 340.868 239.331 15.6634 26.3367 0 600.495 476.609 24.0597 18.9299 0.307392 1 Many thanks -- ************************************************************** Daniel Brewer, Ph.D. Institute of Cancer Research Molecular Carcinogenesis MUCRC 15 Cotswold Road Sutton, Surrey SM2 5NG United Kingdom Tel: +44 (0) 20 8722 4109 Fax: +44 (0) 20 8722 4141 Email: daniel.brewer at icr.ac.uk

The string "AGILENT_SCANNER" (3rd line) seems to point in the direction of an Agilent array. HTH, Laurent > Hello, > > Could anyone help me identify the format of this microarray data file? > Here are the first few lines: > > TYPE text text text text text integer integer float float float > float float text float float float float float float text text > integer float float float float float float float float text text > integer float float float float float float float integer float > integer text text integer float float integer text text integer > integer float float integer float text text integer float float > float float integer text text text text text text text text > FEPARAMS FeatureExtractor_UserName FeatureExtractor_ComputerName > FeatureExtractor_ExtractionTime SpotFinder SpotFinder_Version > SpotFinder_NumRows SpotFinder_NumCols SpotFinder_DevLimit > SpotFinder_ROIW SpotFinder_ROIH SpotFinder_NomSpotWidth > SpotFinder_NomSpotHeight CornerMethod CornerUL_x CornerUL_y > CornerUR_x CornerUR_y CornerLL_x CornerLL_y CalcSpotStats > CalcSpotStats_Version CalcSpotStats_RejectMethod > CalcSpotStats_StatBoundFeat CalcSpotStats_StatBoundBG > CalcSpotStats_CookieWidth CalcSpotStats_CookieHeight > CalcSpotStats_BGInnerWidth CalcSpotStats_BGInnerHeight > CalcSpotStats_BGOuterWidth CalcSpotStats_BGOuterHeight OutlierFlagger > OutlierFlagger_Version OutlierFlagger_NonUnifOLOn > OutlierFlagger_FeatATerm OutlierFlagger_FeatBTerm > OutlierFlagger_FeatCTerm OutlierFlagger_BGATerm > OutlierFlagger_BGBTerm OutlierFlagger_BGCTerm > OutlierFlagger_ConfIntPValue OutlierFlagger_PopnOLOn > OutlierFlagger_IQRatio OutlierFlagger_MinPopulation BGSubtractor > BGSubtractor_Version BGSubtractor_BGSubMethod BGSubtractor_MaxPVal > BGSubtractor_WellAboveMulti BGSubtractor_BackgroundCorrectionOn > DyeNorm DyeNorm_Version DyeNorm_SelectMethod DyeNorm_CorrMethod > DyeNorm_RankTolerance DyeNorm_LOWESSSmoothFactor > DyeNorm_LOWESSNumSteps DyeNorm_LOWESSDelta Ratio Ratio_Version > Ratio_ErrorModel Ratio_AddErrorRed Ratio_AddErrorGreen > Ratio_MultErrorRed Ratio_MultErrorGreen Ratio_UseSurrogates > FeatureExtractor FeatureExtractor_Version FeatureExtractor_ArrayName > FeatureExtractor_ScanFileName FeatureExtractor_ScanFileGUID > FeatureExtractor_Barcode FeatureExtractor_DesignFileName > FeatureExtractor_PrintingFileName > DATA Administrator AGILENT_SCANNER Friday, May 21, 2004 13:36:01 > 14f32760-122b-11d3-a2d2-080009b996f0 Version A.6.1.1 Sep 11 2002 > 16:45:52 119 156 6. 17.27415 18. 9. 9. Manual Lock Corners > 35.7460789453694 28.5232645165563 2280.7885295609 45.2267119316202 > 23.210547849786 1798.37437653287 0b39b733-1912-11d3-a2d4-080009b996f0 > Version A.6.1.1 Sep 11 2002 16:46:08 3 1.42 1.42 5.85 5.85 10.8 > 10.8 90. 90. abfc1cb9-f631-11d4-83d0-0010b5093402 Version A.6.1.1 Sep > 11 2002 16:48:13 1 5.e-002 320. 600. 9.e-002 320. 600. 1.e-003 1 > 1.42 15 82594834-4ac3-11d3-a4b8-00108302b7fe Version A.6.1.1 Sep 11 > 2002 16:47:00 5 1.e-002 2.6 1 eef493ec-9143-11d3-a4e6-00108302b7fe > Version A.6.1.1 Sep 11 2002 16:47:20 6 1 5.e-002 0.25 2 0. > de2375cb-7605-11d3-a4e1-00108302b7fe Version A.6.1.1 Sep 11 2002 > 16:47:49 0 30. 30. 9.e-002 9.e-002 1 > 4da119ff-f377-11d2-a2c8-080009b996f0 Version A.6.1.1 Sep 11 2002 > 16:49:03 RedPMT30 _16000526007828_S01_A02 D:\Penny\RedPMT30 > _16000526007828_S01_A02 efe74bc5-ab11-11d8-a817-000103e1c41f > 16000526007828_A02 E:\\000526_d_20030121.xml E:\\000526_P_866_20030918.xml > * > TYPE float float float integer float float float integer integer > float float integer float float integer integer float float integer > float float integer integer integer integer integer float float > float float integer integer integer integer float float float float > float float float float float float float integer float integer > float float float float float > STATS gDarkOffsetAverage gDarkOffsetMedian gDarkOffsetStdDev > gDarkOffsetNumPts rDarkOffsetAverage rDarkOffsetMedian > rDarkOffsetStdDev rDarkOffsetNumPts gNumSatFeat gLocalBGInlierAve > gLocalBGInlierSDev gLocalBGInlierNum gGlobalBGInlierAve > gGlobalBGInlierSDev gGlobalBGInlierNum rNumSatFeat rLocalBGInlierAve > rLocalBGInlierSDev rLocalBGInlierNum rGlobalBGInlierAve > rGlobalBGInlierSDev rGlobalBGInlierNum gNumFeatureNonUnifOL > gNumPopnOL gNumNonUnifBGOL gNumPopnBGOL gOffsetUsed > gGlobalFeatInlierAve gGlobalFeatInlierSDev gGlobalFeatInlierNum > rNumFeatureNonUnifOL rNumPopnOL rNumNonUnifBGOL rNumPopnBGOL > rOffsetUsed rGlobalFeatInlierAve rGlobalFeatInlierSDev > rGlobalFeatInlierNum AllColorPrcntSat AnyColorPrcntSat > AnyColorPrcntFeatNonUnifOL AnyColorPrcntBGNonUnifOL > AnyColorPrcntFeatPopnOL AnyColorPrcntBGPopnOL TotalPrcntFeatOL > gNumNegBGSubFeat gBGAdjust rNumNegBGSubFeat rBGAdjust > gLinearDyeNormFactor rLinearDyeNormFactor DyeNormDimensionlessRMS > DyeNormUnitWeightedRMS > DATA 23.677 24 4.70738 1000 23.97 24 6.44354 1000 0 276.944 18.3738 > 10855 276.944 18.3738 10855 0 197.602 17.5954 12570 197.602 17.5954 > 12570 90 9 125 2322 117.818 613.491 291.313 13087 144 12 197 605 > 76.0909 694.52 445.697 13030 0 0 1.0999 1.50193 0.0986118 19.5858 > 1.09116 87 15.9298 40 -9.31923 3.92258 2.37225 0.206798 0.0402023 > * > TYPE integer integer integer text text text integer integer text > text text text float float float float float float float boolean > boolean float float float float integer integer integer integer > integer integer float float float float float float integer integer > float float float float float float integer integer boolean boolean > float float boolean boolean boolean boolean boolean boolean boolean > boolean boolean float float float float float boolean boolean float > float integer integer boolean boolean float float float float float > boolean float float float float float integer > FEATURES FeatureNum Row Col Pass unigene_code Zone ProbeUID > ControlType ProbeName GeneName SystematicName Description PositionX > PositionY LogRatio LogRatioError PValueLogRatio gSurrogateUsed > rSurrogateUsed gIsFound rIsFound gProcessedSignal rProcessedSignal > gProcessedSigError rProcessedSigError gNumPixOLHi rNumPixOLHi > gNumPixOLLo rNumPixOLLo gNumPix rNumPix gMeanSignal rMeanSignal > gMedianSignal rMedianSignal gPixSDev rPixSDev gBGNumPix rBGNumPix > gBGMeanSignal rBGMeanSignal gBGMedianSignal rBGMedianSignal > gBGPixSDev rBGPixSDev gNumSatPix rNumSatPix gIsSaturated rIsSaturated > PixCorrelation BGPixCorrelation gIsFeatNonUnifOL rIsFeatNonUnifOL > gIsBGNonUnifOL rIsBGNonUnifOL gIsFeatPopnOL rIsFeatPopnOL gIsBGPopnOL > rIsBGPopnOL IsManualFlag gBGSubSignal rBGSubSignal gBGSubSigError > rBGSubSigError BGSubSigCorrelation gIsPosAndSignif rIsPosAndSignif > gPValFeatEqBG rPValFeatEqBG gNumBGUsed rNumBGUsed gIsWellAboveBG > rIsWellAboveBG IsUsedBGAdjust gBGUsed rBGUsed gBGSDUsed rBGSDUsed > IsNormalization gDyeNormSignal rDyeNormSignal gDyeNormError > rDyeNormError DyeNormCorrelation ErrorModel > DATA 1 1 1 -1 1 0 1 Fiducial Fiducial Fiducial Fiducial 32.1844 > 25.4037 -0.100347 0.0656086 0.126144 0 0 1 1 600.495 476.609 24.0597 > 18.9299 0 1 0 0 27 27 496 437.593 497 442 31.6617 39.4883 163 163 > 324.939 248.65 324 243 15.6634 26.3367 0 0 0 0 0.324885 > 0.000418385 0 0 0 0 0 0 0 0 0 155.132 198.262 6.21557 7.87453 > 0.307392 1 1 9.66082e-021 1.04613e-021 1 1 1 1 0 340.868 239.331 > 15.6634 26.3367 0 600.495 476.609 24.0597 18.9299 0.307392 1 > > Many thanks > > -- > ************************************************************** > > Daniel Brewer, Ph.D. > > Institute of Cancer Research > Molecular Carcinogenesis > MUCRC > 15 Cotswold Road > Sutton, Surrey SM2 5NG > United Kingdom > > Tel: +44 (0) 20 8722 4109 > Fax: +44 (0) 20 8722 4141 > > Email: daniel.brewer at icr.ac.uk > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > > !DSPAM:459ba197182831185188517! > > >