# Ciphergen SELDI-TOF Processing

## Documentation for package `PROcess' version 1.3.4

## User Guides and Package Vignettes

Read overview or browse directory.

## Help Pages

align | Align peaks for a specified precision.
avesd | Compute the Average Standard Deviation for a Set of Spectra and a Given Cutoff Point
aveSpec | Compute mean spectrum of a set of spectra
binning | Binning the Mass Spectrometry Data
bslnoff | Baseline Substraction
gelmap | Plot the image of a set of spectra
getMzs | Extract M/Z values from the biomarker dataframe.
getPeaks | Peak Detection
getPeaks2 | Quantify peaks for individual spectra.
intg | Integration
is.multiple | Find multiple-charged polypeptides.
isPeak | Locate Peaks in a Spectrum
lnn | Estimate Signal and Variation of a Spectrum
noise | Peak Detection
peaks | Peak Detection
pk2bmkr | Find Biomarkers.
quality | Quality Check on a Set of Spectra
read.files | Read a Spectrum from a Comma Deliminated File
renorm | Renormalize Spectra
rmBaseline | Batch Baseline Subtraction.
sigma | Peak Detection
specZoom | Plotting a Spectrum with Peaks