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 proteomics: Statistical Analysis of High Throughput Proteomics Data
 norm2Reference: Response calculation
Response calculation
Description
Norming the responses of a single iTRAQ to a given reference channel.
Usage
1  norm2Reference(dlong)

Arguments
dlong 
iTRAQ data in long format. 
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 accum: Response calculation
 addIonSatistics: Summary statistics  Ion intensities per spectra
 addLoadings: Adjust for confounding  add an appropiate target
 addRetentionAtApex: Summary statistics  Calculates retention time statistics at...
 addRetentionIndexTimeStatistics: Summary statistics  Calculates index retention time...
 adjustBy: Adjust for confounding  Generic function for centring data
 adjusting: Adjust for confounding  State of the art adjustments for...
 adjustOne: Adjust for confounding  In one single experiment only
 avrgLoading: Adjust for confounding  calculates the average loading
 channelResponses: Response calculation
 copyLoadings: Adjust for confounding  copy loadings from one experiment to...
 factoring: Sample design  Generating multiple factor designs from...
 meetSelection: Data parsing  from Proteom Discover v1.4
 mergeFrames: Merging multiple experiments
 norm2Reference: Response calculation
 pAction: Plotting pvalue distributions
 plotMePeptide: Plot interaction plots of peptides
 plotMeProtein: Plot interaction plots of proteins
 pRetention: Plot Retention Time Statistics
 pVioline: Plot Retention Time Statistics in violine form
 pVolcano: Volcano plot
 responseStatisics: Summary statistics  Generic to calculate summary statistics
 selectByConfidence: Result filtering  Test for biological effect
 selectByEffect: Result filtering  Test for biological effect
 selectByFDR: Result filtering
 testForPeptideEffect: Data Analysis  Testing on peptide level
 testForProteinEffect: Data Analysis  Testing on protein level
 testing: Data Analysis  Testing features with Tukey Honest...
 testingOneshot: Data Analysis  Testing one feature without Tukey Honest...
 testingTukey: Data Analysis  Testing one feature with Tukey Honest...
 toAlpha: Measuring stability  angle of loading vector
 toProportions: Transformation  From intensity scales to density histrograms