Calibration and filtering of MALDI-TOF Peptide Mass Fingerprint data.

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Documentation for package `mscalib' version 0.5.9

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A C D E G H I L M P R S U W misc

-- A --

applycalib.calibintlist Internal Calibration
applycalib.calibintstat Internal Calibration
applycalib.calibrelist Precalibration
applycalib.calibrestat Precalibration
applycalib.calibspline External Calbiration
applyextcalib.massvector External Calbiration
applyextcalib.massvectorlist External Calbiration
applyintcalib.massvector Internal Calibration
applyintcalib.massvectorlist Internal Calibration
applyrecalib.massvector Precalibration
applyrecalib.massvectorlist Recalibration
as.data.frame.mlist Data Frames
as.list.massvectorlist List
as.lm.calibintstat Fitting Linear Models
as.matrix.massvector Matrices
as.matrix.mlist Matrices
as.vector.calibintstat Coerces to vectors
as.vector.calibrestat Coerces to vector
as.vector.massvector Vector

-- C --

c.massvector Combine Massvectors into one Massvector.
c.massvectorlist Combine
cal Calibration masses
calibexternal.massvector External Calbiration
calibexternal.massvectorlist External Calbiration
calibintlist Constructor
calibintstat Constructor
caliblist Constructor
calibrelist Constructor
calibrestat Constructor
calibspline Constructor
compare.massvector Compares massvectors
correctinternal.massvector Internal Calibration
correctinternal.massvectorlist Internal Calibration

-- D --

diffFilter.massvector Abundant Differences
diffFilter.massvectorlist Abundant Differences

-- E --

experiment.mlist Info Acces

-- G --

gamasses.massvector Abundant masses
gamasses.massvectorlist Abundant masses
getaccC Find Matching Masses
getdiff.massvector Massdifferences
getdiff.massvectorlist Massdifferences
getextcalib.massvector External Error Model
getextcalib.massvectorlist External Error Model
getglobalcalib.massvectorlist Set Based Internal Calbiration
getintcalib.massvector Internal Calbiration.
getintcalib.massvectorlist Internal Calbiration
getPPGmasses PPG masses
getrecalib.massvector Precalibration
getrecalib.massvectorlist Precalibration
globalcalib.massvectorlist Set Based Internal Calibration

-- H --

hist.calibintlist Histogram Plot
hist.calibrelist Histogram Plot
hist.calibstat Histogram
hist.massvector Histograms
hist.massvectorlist Histograms
hist.mylistobj hist
histLengths Histograms

-- I --

image.massvector Display a Color Image
image.mlist Display a Color Image
image.mylistobj image
info.mlist Info Acces
info.mylistobj Info Acces
info.myobj Info Acces

-- L --

length.massvector Length of Massvector

-- M --

mass.massvector Mass Access.
massvector Constructor
massvectorlist Constructor
max.massvector Maxima and Minima
mget.massvector Field Access
mget.mlist Field Access
mget.mylistobj Field Access
mget.myobj Field Access
min.massvector Maxima and Minima
mv1 Massvector with experimentally determined peptide masses.
mv2 Massvector with experimentally determined peptide masses.
mvFilter.massvector Filtering Massvector
mvFilter.massvectorlist Filtering Massvector
mvl A list of 333 massvectors with experimentally determined peptide masses.
mvll A list of 333 massvectors with experimentally determined peptide masses.

-- P --

peaks.massvector Data Access
plot.calibintlist Calibintlist Plotting
plot.calibintstat Calibinstat Plotting
plot.caliblist plot
plot.calibrelist Plot
plot.calibspline Calibspline Plotting
plot.calibstat plot
plot.massvector Massvector Plotting
plot.massvectorlist Massvectorlist Plotting
plot.mylistobj plot
ppg A list of 12 massvectors wiht ppg masses.
print.calibintstat Print calibintstat
print.caliblist Print caliblist
print.calibrestat Print Calibrestat Object
print.calibspline Print Calibspline Object
print.calibstat print
print.massvector Print massvector
print.massvectorlist Print massvectorlist
project.massvectorlist Acces

-- R --

readF.massvector Read Massvector
readF.massvectorlist Reads massvectorlist
recalibrate.massvector Precalibration
recalibrate.massvectorlist Precalibration
residuals.massvector Residues of 2 massvectors.

-- S --

subset.mlist Subset mlist
summary.calibintstat Calibintstat Summaries
summary.calibspline Calibspline Summaries
summary.calibstat Calibstat summary
summary.massvector Massvector Summaries
summary.mlist mist Summaries

-- U --

unlist.massvectorlist Flatten massvectorlist

-- W --

writeF.massvector Write massvector
writeF.massvectorlist Write massvectorlist
wsdist.massvector Wool Smilanski Distance Matrix
wsFilter.massvector Smilanski Filtering
wsFilter.massvectorlist Smilanski Filtering
wsiFilter.massvector Smilanski Filtering

-- misc --

[.caliblist Extract Parts of a Caliblist.
[.massvector Extract Parts of an Massvector
[.massvectorlist Extract Parts of an Massvectorlist.
[Assing.massvectorlist Replace Parts of Massvectorlist
[[Assing.caliblist Replace calibstat object in the caliblist.
[[Assing.massvectorlist Replace Parts of an Object