Package: DFP 1.65.0

Rodrigo Alvarez-Glez

DFP: Gene Selection

This package provides a supervised technique able to identify differentially expressed genes, based on the construction of \emph{Fuzzy Patterns} (FPs). The Fuzzy Patterns are built by means of applying 3 Membership Functions to discretized gene expression values.

Authors:R. Alvarez-Gonzalez, D. Glez-Pena, F. Diaz, F. Fdez-Riverola

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DFP.pdf |DFP.html✨
DFP/json (API)

# Install 'DFP' in R:
install.packages('DFP', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:

On BioConductor:DFP-1.65.0(bioc 3.21)DFP-1.64.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarraydifferentialexpression

3.78 score 5 scripts 284 downloads 3 mentions 11 exports 3 dependencies

Last updated 2 months agofrom:c67c641008. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 13 2024
R-4.5-winNOTEDec 13 2024
R-4.5-linuxNOTEDec 13 2024
R-4.4-winNOTEDec 13 2024
R-4.4-macNOTEDec 13 2024
R-4.3-winNOTEDec 13 2024
R-4.3-macNOTEDec 13 2024

Exports:calculateDiscriminantFuzzyPatterncalculateFuzzyPatternscalculateMembershipFunctionsdiscretizeExpressionValuesdiscriminantFuzzyPatternplotDiscriminantFuzzyPatternplotMembershipFunctionsreadCSVshowshowDiscreteValuesshowFuzzyPatterns

Dependencies:BiobaseBiocGenericsgenerics

Howto: Discriminat Fuzzy Pattern

Rendered fromDFP.Rnwusingutils::Sweaveon Dec 13 2024.

Last update: 2013-11-01
Started: 2013-11-01

Readme and manuals

Help Manual

Help pageTopics
DFP Package OverviewDFP-package DFP
Calculates the Discriminant Fuzzy Pattern to select significative genescalculateDiscriminantFuzzyPattern
Calculates a Fuzzy Pattern for each category of the samplescalculateFuzzyPatterns
Calculates Membership FunctionscalculateMembershipFunctions
Function to discretize gene expression datadiscretizeExpressionValues
Discriminant Fuzzy Pattern to filter genesdiscriminantFuzzyPattern
Class "ExpressionLevel"ExpressionLevel-class show,ExpressionLevel-method
Class "HighExpressionLevel"computeMembership,HighExpressionLevel-method HighExpressionLevel-class setValues,HighExpressionLevel-method
Class "LowExpressionLevel"computeMembership,LowExpressionLevel-method LowExpressionLevel-class setValues,LowExpressionLevel-method
Class "MediumExpressionLevel"computeMembership,MediumExpressionLevel-method MediumExpressionLevel-class setValues,MediumExpressionLevel-method
Plots the Discriminant Fuzzy Pattern of the relevant genesplotDiscriminantFuzzyPattern
Plots the Membership Functions (Low, Medium, High) used to discretize gene expression valuesplotMembershipFunctions
Creates an ExpressionSet with an AnnotatedDataFrame from CSV filesreadCSV
A sample ExpressionSet objectrmadataset
Prints the slots (attributes) of an ExpressionLevel objectshow-methods
Prints the labels to which the algorithm converts the gene expression valuesshowDiscreteValues
Plots the Fuzzy Patterns corresponding to a classshowFuzzyPatterns