Preprocessing and Modeling Kinase Activity Profiles in PamChip Data


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Documentation for package ‘PamGeneMixed’ version 1.02

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AutoPamGeneMix Simultaneously Fitting Semi-Parametric Mixed Models to PamChip Data
CleanedPamData "CleanedPamData"
CleanedPamData-class "CleanedPamData"
CleanedPeptide "CleanedPeptide"
CleanedPeptide-class "CleanedPeptide"
ObservedCellProfiles Observed Cell Line Specific Profiles
ObservedGroupProfiles Observed Group Specific Profiles
ObservedRepProfiles Observed replicate specific profiles
PamChipAllPepResults "PamChipAllPepResults"
PamChipAllPepResults-class "PamChipAllPepResults"
PamChipData PamChip Microarray Data
PamChipMixed "PamChipMixed"
PamChipMixed-class "PamChipMixed"
PamChipMixed-method "PamChipMixed"
PamGeneMix Fitting Semi-Parametric Mixed Models to PamChip Data
PreProcessAllPeptides Pre-processing PamChip Array data
PreProcessPam Pre-processing Cell Line specific data for a given Peptide
show-method "CleanedPamData"
show-method "CleanedPeptide"
show-method "PamChipAllPepResults"
show-method "PamChipMixed"
summary-method Summarize Fitted Gamm Object for a given Peptide
TestPepModelData PamChip Peptide Specific Cleaned Data
testVarCom Wald Test to check variances are equal or not
VisualizePamGeneMix Visualize PamGeneMix Output Objects
VolcanoPam Visualize Output Object from AutoPamGeneMix