PROcess: Ciphergen SELDI-TOF Processing

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A package for processing protein mass spectrometry data.

Author
Xiaochun Li
Date of publication
None
Maintainer
Xiaochun Li <xiaochun@jimmy.harvard.edu>
License
Artistic-2.0
Version
1.50.0

View on Bioconductor

Man pages

align
Align peaks for a specified precision.
avesd
Compute the Average Standard Deviation for a Set of Spectra...
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
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.
specZoom
Plotting a Spectrum with Peaks

Files in this package

PROcess/DESCRIPTION
PROcess/NAMESPACE
PROcess/R
PROcess/R/align.R
PROcess/R/aveSpec.R
PROcess/R/avesd.R
PROcess/R/binning.R
PROcess/R/bslnoff.R
PROcess/R/gelmap.R
PROcess/R/getMzs.R
PROcess/R/getPeaks.R
PROcess/R/getPeaks2.R
PROcess/R/intg.R
PROcess/R/is.multiple.R
PROcess/R/isPeak.R
PROcess/R/lnn.R
PROcess/R/mymad.R
PROcess/R/noise.R
PROcess/R/peaks.R
PROcess/R/pk2bmkr.R
PROcess/R/quality.R
PROcess/R/read.files.R
PROcess/R/renorm.R
PROcess/R/rmBaseline.R
PROcess/R/segbg.R
PROcess/R/sigma.R
PROcess/R/specZoom.R
PROcess/R/trnc.R
PROcess/build
PROcess/build/vignette.rds
PROcess/inst
PROcess/inst/Test
PROcess/inst/Test/122402imac40-s-c-192combined_i11.csv
PROcess/inst/Test/122402imac40-s-c-192combined_i12.csv
PROcess/inst/calibration
PROcess/inst/calibration/060503peptidecalib_1_128.csv
PROcess/inst/calibration/060503peptidecalib_1_16.csv
PROcess/inst/calibration/060503peptidecalib_1_2.csv
PROcess/inst/calibration/060503peptidecalib_1_256.csv
PROcess/inst/calibration/060503peptidecalib_1_32.csv
PROcess/inst/calibration/060503peptidecalib_1_4.csv
PROcess/inst/calibration/060503peptidecalib_1_64.csv
PROcess/inst/calibration/060503peptidecalib_1_8.csv
PROcess/inst/doc
PROcess/inst/doc/howtoprocess.R
PROcess/inst/doc/howtoprocess.Rnw
PROcess/inst/doc/howtoprocess.pdf
PROcess/man
PROcess/man/align.Rd
PROcess/man/aveSpec.Rd
PROcess/man/avesd.Rd
PROcess/man/binning.Rd
PROcess/man/bslnoff.Rd
PROcess/man/gelmap.Rd
PROcess/man/getMzs.Rd
PROcess/man/getPeaks.Rd
PROcess/man/getPeaks2.Rd
PROcess/man/intg.Rd
PROcess/man/is.multiple.Rd
PROcess/man/isPeak.Rd
PROcess/man/lnn.Rd
PROcess/man/peaks.Rd
PROcess/man/pk2bmkr.Rd
PROcess/man/quality.Rd
PROcess/man/read.files.Rd
PROcess/man/renorm.Rd
PROcess/man/rmBaseline.Rd
PROcess/man/specZoom.Rd
PROcess/vignettes
PROcess/vignettes/howtoprocess.Rnw
PROcess/vignettes/howtoprocess.bib