rfOptimisation
(Package: pRoloc) :
svm parameter optimisation
Classification parameter optimisation for the random forest algorithm.
● Data Source:
BioConductor
● Keywords:
● Alias: rfOptimisation, rfOptimization, rfRegularisation
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sampleMSnSet
(Package: pRoloc) :
Extract a stratified sample of an code{MSnSet
This function extracts a stratified sample of an MSnSet.
● Data Source:
BioConductor
● Keywords:
● Alias: sampleMSnSet
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This function prints a textual description of the Gene Ontology evidence codes.
● Data Source:
BioConductor
● Keywords:
● Alias: getGOEvidenceCodes, showGOEvidenceCodes
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Subsets a matrix of markers by specific terms
● Data Source:
BioConductor
● Keywords:
● Alias: subsetMarkers
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Classification using the support vector machine algorithm.
● Data Source:
BioConductor
● Keywords:
● Alias: svmClassification, svmPrediction
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Classification parameter optimisation for the support vector machine algorithm.
● Data Source:
BioConductor
● Keywords:
● Alias: svmOptimisation, svmOptimization, svmRegularisation
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testMSnSet
(Package: pRoloc) :
Create a stratified 'test' code{MSnSet
This function creates a stratified 'test' MSnSet which can be used for algorihtmic development. A "MSnSet" containing only the marker proteins, as defined in fcol, is returned with a new feature data column appended called test in which a stratified subset of these markers has been relabelled as 'unknowns'.
● Data Source:
BioConductor
● Keywords:
● Alias: testMSnSet
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testMarkers
(Package: pRoloc) :
Tests marker class sizes
Tests if the marker class sizes are large enough for the parameter optimisation scheme, i.e. the size is greater that xval + n, where the default xval is 5 and n is 2. If the test is unsuccessful, a warning is thrown.
● Data Source:
BioConductor
● Keywords:
● Alias: testMarkers
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thetas
(Package: pRoloc) :
Draw matrix of thetas to test
The possible weights to be considered is a sequence from 0 (favour auxiliary data) to 1 (favour primary data). Each possible combination of weights for nclass classes must be tested. The thetas function produces a weight matrix for nclass columns (one for each class) with all possible weight combinations (number of rows).
● Data Source:
BioConductor
● Keywords:
● Alias: thetas
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undocumented
(Package: pRoloc) :
Undocumented/unexported entries
This is just a dummy entry for methods from unexported classes that generate warnings during package checking.
● Data Source:
BioConductor
● Keywords:
● Alias: undocumented
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