Semi-Supervised Nonnegative Matrix Factorization for Gene Expression Deconvolution


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Documentation for package ‘NMFged’ version 1.0

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NMFged-package Semi-Supervised Nonnegative Matrix Factorization for Gene Expression Deconvolution
"toto,NMF,ANY-method" Annotated Heatmap of NMF Basis Components
attachMarkers Utility Class and Methods for Handling Marker Lists
basismarker Annotated Heatmap of NMF Basis Components
curated.probes Marker Probesets from Abbas et al.
enforceMarkers Enforcing Marker Block Patterns
enforceMarkers-method Enforcing Marker Block Patterns
extractMarkers Extracting Marker Features from Pure Samples.
extractMarkers-method Extracting Marker Features from Pure Samples.
getMarkers Utility Class and Methods for Handling Marker Lists
GSE11058.basis Reference NMF Model for the Dataset GSE11058
GSE11058.coef Reference NMF Model for the Dataset GSE11058
has.markers Utility Class and Methods for Handling Marker Lists
markerIndex Utility Class and Methods for Handling Marker Lists
markerIndex-method Utility Class and Methods for Handling Marker Lists
MarkerList Utility Class and Methods for Handling Marker Lists
MarkerList-class Utility Class and Methods for Handling Marker Lists
markermap Plotting Functions for MarkerList Objects
markermap-method Plotting Functions for MarkerList Objects
markerStatstoList Extracting Marker Features from Pure Samples.
match.nmf Assigning Estimated Signature to Real Cell-Types
nmark Utility Class and Methods for Handling Marker Lists
nmark-method Utility Class and Methods for Handling Marker Lists
NMFged Semi-Supervised Nonnegative Matrix Factorization for Gene Expression Deconvolution
plotMarkers Plotting Functions for MarkerList Objects
rev Utility Class and Methods for Handling Marker Lists
subset Utility Class and Methods for Handling Marker Lists
subset-method Utility Class and Methods for Handling Marker Lists
summary Utility Class and Methods for Handling Marker Lists
summary-method Utility Class and Methods for Handling Marker Lists