slfm: Tools for Fitting Sparse Latent Factor Model
Version 0.2.2

Set of tools to find coherent patterns in microarray data using a Bayesian sparse latent factor model (Duarte and Mayrink 2015 - http://link.springer.com/chapter/10.1007%2F978-3-319-12454-4_15). Considerable effort has been put into making slfm fast and memory efficient, turning it an interesting alternative to simpler methods in terms of execution time. It implements versions of the SLFM using both type of mixtures: using a degenerate distribution or a very concentrated normal distribution for the spike part of the mixture. It also implements additional functions to help pre-process the data and fit the model for a large number of arrays.

Browse man pages Browse package API and functions Browse package files

AuthorJoao Duarte and Vinicius Mayrink
Date of publication2015-08-10 09:09:59
MaintainerJoao Duarte <jdanielnd@gmail.com>
LicenseGPL-2
Version0.2.2
URL https://github.com/jdanielnd/slfm
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("slfm")

Man pages

plot_matrix: Plot matrix
process_matrix: Pre-process data for SLFM
slfm: Sparse Latent Factor Model
slfm_list: Fit SLFM to the matrices inside a directory
slfm-package: slfm: the sparse latent factor model package for R.

Functions

alpha_estimation Source code
class_interval Source code
class_interval_uni Source code
class_mean Source code
format_classification Source code
gibbs Source code
plot_matrix Man page Source code
print.slfm Source code
process_matrix Man page Source code
process_sample Source code
slfm Man page Source code
slfm-package Man page
slfm_MDN Source code
slfm_MNN Source code
slfm_list Man page Source code

Files

src
src/Makevars
src/slfm_MNN.cpp
src/gibbs.cpp
src/slfm_MDN.cpp
src/Makevars.win
src/RcppExports.cpp
NAMESPACE
NEWS
R
R/process_matrix.r
R/plot_matrix.r
R/class_interval.r
R/RcppExports.R
R/slfm_list.r
R/slfm.r
R/slfm-package.r
MD5
DESCRIPTION
man
man/slfm_list.Rd
man/process_matrix.Rd
man/slfm-package.Rd
man/plot_matrix.Rd
man/slfm.Rd
slfm documentation built on May 19, 2017, 1:52 p.m.