RDocumentation
Moon
Learn R
Search all packages and functions
Mfuzz (version 2.32.0)
Soft clustering of time series gene expression data
Description
Package for noise-robust soft clustering of gene expression time-series data (including a graphical user interface)
Copy Link
Copy
Link to current version
Version
Version
2.32.0
2.30.0
2.28.0
2.26.0
Down Chevron
Version
2.32.0
License
GPL-2
Maintainer
Matthias Futschik
Last Published
March 10th, 2016
Functions in Mfuzz (2.32.0)
Search functions
membership
Calculating of membership values for new data based on existing clustering
mestimate
Estimate for optimal fuzzifier m
kmeans2
K-means clustering for gene expression data
kmeans2.plot
Plotting results for k-means clustering
randomise
Randomisation of data
standardise
Standardization of microarray data for clustering.
mfuzzColorBar
Plots a colour bar
mfuzz.plot2
Plotting results for soft clustering with additional options
yeast.table2
Gene expression data of the yeast cell cycle as table
yeast.table
Gene expression data of the yeast cell cycle as table
filter.NA
Filtering of genes based on number of non-available expression values.
filter.std
Filtering of genes based on their standard deviation.
overlap.plot
Visualisation of cluster overlap and global clustering structure
partcoef
Calculation of the partition coefficient matrix for soft clustering
cselection
Repeated soft clustering for detection of empty clusters for estimation of optimised number of clusters
acore
Extraction of alpha cores for soft clusters
mfuzz
Function for soft clustering based on fuzzy c-means.
mfuzz.plot
Plotting results for soft clustering
top.count
Determines the number for which each gene has highest membership value in all cluster
yeast
Gene expression data of the yeast cell cycle
Dmin
Calculation of minimum centroid distance for a range of cluster numbers for estimation of optimised number of clusters
fill.NA
Replacement of missing values
Mfuzzgui
Graphical user interface for Mfuzz package
overlap
Calculation of the overlap of soft clusters
standardise2
Standardization in regards to selected time-point
table2eset
Conversion of table to Expression set object.