Processing & Classification of Protein Mass Spectra (SELDI) Data


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Documentation for package ‘caMassClass’ version 1.8

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caMassClass-package Processing and Classification of Protein Mass Spectra Data
caMassClass Processing and Classification of Protein Mass Spectra Data
msc.baseline.subtract Baseline Subtraction for Mass Spectra Data
msc.biomarkers.fill Fill Empty Spaces in Biomarker Matrix
msc.biomarkers.read.csv Read and Write biomarker matrix in CSV format
msc.biomarkers.write.csv Read and Write biomarker matrix in CSV format
msc.classifier.run Train and Test Chosen Classifier.
msc.classifier.test Test a Classifier through Cross-validation
msc.copies.merge Merge Multiple Copies of Mass Spectra Samples
msc.features.remove Remove Highly Correlated Features
msc.features.scale Scale Classification Data
msc.features.select Reduce Number of Features Prior to Classification
msc.mass.adjust Perform Normalization and Mass Drift Adjustment for Mass Spectra Data.
msc.mass.adjust.apply Perform Normalization and Mass Drift Adjustment for Mass Spectra Data.
msc.mass.adjust.calc Perform Normalization and Mass Drift Adjustment for Mass Spectra Data.
msc.mass.cut Remove Low Mass Portion of the Mass Spectra Data.
msc.peaks.align Align Peaks of Mass Spectra into a "Biomarker" Matrix
msc.peaks.alignment Align Peaks of Mass Spectra into a "Biomarker" Matrix
msc.peaks.clust Clusters Peaks of Mass Spectra
msc.peaks.find Find Peaks of Mass Spectra
msc.peaks.read.csv Read and Write Mass Spectra Peaks in CSV Format
msc.peaks.read.mzXML Read / write calculated peaks heights and positions to/from mzXML Files
msc.peaks.write.csv Read and Write Mass Spectra Peaks in CSV Format
msc.peaks.write.mzXML Read / write calculated peaks heights and positions to/from mzXML Files
msc.preprocess.run Preprocessing Pipeline of Protein Mass Spectra
msc.project.read Read and Manage a Batch of Protein Mass Spectra
msc.project.run Read and Preprocess Protein Mass Spectra
msc.rawMS.read.csv Read Protein Mass Spectra from CSV files
msc.rawMS.read.mzXML Read / write raw Mass Spectra to/from mzXML Files
msc.rawMS.write.mzXML Read / write raw Mass Spectra to/from mzXML Files
msc.sample.correlation Sample Correlation
new.mzXML Read and Write mzXML Files
read.mzXML Read and Write mzXML Files
write.mzXML Read and Write mzXML Files