Entry: ParameterList-class
Aliases: ParameterList-class show,ParameterList-method
Keywords: classes
Description: Class "ParameterList" - List to store all the parameters
URL: ../../../library/CALIB/html/ParameterList-class.html

Entry: RG
Aliases: RG
Keywords: datasets
Description: Experiment Data: RGList\_CALIB Example
URL: ../../../library/CALIB/html/RG.html

Entry: RGList_CALIB-class
Aliases: RGList_CALIB-class show,RGList_CALIB-method coerce,RGList_CALIB,exprSet2-method
Keywords: classes
Description: Red, Green Intensity List - Class
URL: ../../../library/CALIB/html/RGList_CALIB-class.html

Entry: SpikeList-class
Aliases: SpikeList-class show,SpikeList-method
Keywords: classes
Description: Class "SpikeList" - Spike Intensity and Concentration List
URL: ../../../library/CALIB/html/SpikeList-class.html

Entry: adjustP2
Aliases: adjustP2
Keywords: optimize
Description: Adjust model parameter P2
URL: ../../../library/CALIB/html/adjustP2.html

Entry: calibReadMe
Aliases: calibReadMe
Keywords: documentation
Description: View CALIB readme file
URL: ../../../library/CALIB/html/calibReadMe.html

Entry: cbind
Aliases: cbind.RGList_CALIB cbind.SpikeList cbind.ParameterList rbind.RGList_CALIB rbind.SpikeList
Keywords: manip
Description: Combine RGList\_CALIB, SpikeList or ParameterList objects
URL: ../../../library/CALIB/html/cbind.html

Entry: dim
Aliases: dim.RGList_CALIB dim.SpikeList length.RGList_CALIB length.SpikeList
Keywords: array
Description: Retrieve the Dimensions of an RGList\_CALIB or SpikeList object
URL: ../../../library/CALIB/html/dim.html

Entry: dimnames
Aliases: dimnames.RGList_CALIB dimnames.SpikeList
Keywords: array
Description: Retrieve the Dimension Names of an RGList\_CALIB or SpikeList object.
URL: ../../../library/CALIB/html/dimnames.html

Entry: estimateParameter
Aliases: estimateParameter
Keywords: optimize
Description: Estimate model parameter from spikes
URL: ../../../library/CALIB/html/estimateParameter.html

Entry: getColClasses
Aliases: getColClasses
Keywords: file
Description: Construct colClasses vector for use within read.rg function
URL: ../../../library/CALIB/html/getColClasses.html

Entry: merge
Aliases: merge.RGList_CALIB merge.SpikeList
Keywords: manip
Description: Merge RGList\_CALIB or SpikeList objects
URL: ../../../library/CALIB/html/merge.html

Entry: normalizeData
Aliases: normalizeData
Keywords: optimize
Description: Normalization: estimation of absolute expression levels
URL: ../../../library/CALIB/html/normalizeData.html

Entry: normdata
Aliases: normdata
Keywords: datasets
Description: Example of normalized data
URL: ../../../library/CALIB/html/normdata.html

Entry: parameter
Aliases: parameter
Keywords: datasets
Description: Calibration Model parameter: ParameterList Example
URL: ../../../library/CALIB/html/parameter.html

Entry: plotNormalizedData
Aliases: plotNormalizedData
Keywords: hplot
Description: plot estimated absolute levels of two conditions
URL: ../../../library/CALIB/html/plotNormalizedData.html

Entry: plotSpikeCI
Aliases: plotSpikeCI
Keywords: hplot
Description: plot spike concentration vs measured intensity
URL: ../../../library/CALIB/html/plotSpikeCI.html

Entry: plotSpikeHI
Aliases: plotSpikeHI
Keywords: hplot
Description: plot hybridized target vs intensity
URL: ../../../library/CALIB/html/plotSpikeHI.html

Entry: plotSpikeRG
Aliases: plotSpikeRG
Keywords: hplot
Description: plot spike intensity R vs G
URL: ../../../library/CALIB/html/plotSpikeRG.html

Entry: plotSpikeSpotError
Aliases: plotSpikeSpotError
Keywords: hplot
Description: plot spot error of spikes.
URL: ../../../library/CALIB/html/plotSpikeSpotError.html

Entry: read.rg
Aliases: read.rg
Keywords: file
Description: Read RGList\_CALIB from Image Analysis Output Files
URL: ../../../library/CALIB/html/read.rg.html

Entry: read.spike
Aliases: read.spike
Keywords: file
Description: Read SpikeList from a RGList\_CALIB and Concentration files
URL: ../../../library/CALIB/html/read.spike.html

Entry: spike
Aliases: spike
Keywords: datasets
Description: Experiment Data: SpikeList Example
URL: ../../../library/CALIB/html/spike.html

Entry: subsetting
Aliases: [.RGList_CALIB [.SpikeList [.ParameterList
Keywords: array
Description: Subset of RGList\_CALIB, SpikeList or ParameterList object
URL: ../../../library/CALIB/html/subsetting.html
