Title: Regularized Low Rank Matrix Estimation
Author: Julie Josse, Sylvain Sardy, Stefan Wager
Imports: irlba, Matrix, FactoMineR, stats
Description: Estimate a low rank matrix from noisy data using singular values
thresholding and shrinking functions. Impute missing values with matrix completion. The method is described in <arXiv:1602.01206>.

thresholding and shrinking functions. Impute missing values with matrix completion.

Title: Statistical Analyses of De Novo Genetic Variants
Description: An integrated toolset for the analysis of de novo (sporadic) genetic sequence variants.  denovolyzeR implements a mutational model that estimates the probability of a de novo genetic variant arising in each human gene, from which one can infer the expected number of de novo variants in a given population size.  Observed variant frequencies can then be compared against expectation in a Poisson framework.  denovolyzeR provides a suite of functions to implement these analyses for the interpretation of de novo variation in human disease.
Imports: dplyr (>= 0.3), reshape (>= 0.8)
Packaged: 2015-04-09 06:35:00 UTC; jamesware

Description: An integrated toolset for the analysis of de novo (sporadic)
genetic sequence variants. denovolyzeR implements a mutational model that
estimates the probability of a de novo genetic variant arising in each human
gene, from which one can infer the expected number of de novo variants in a
given population size. Observed variant frequencies can then be compared against
expectation in a Poisson framework. denovolyzeR provides a suite of functions
to implement these analyses for the interpretation of de novo variation in human
Packaged: 2016-06-18 02:03:35 UTC; jamesware

Imports: dplyr (>= 0.3), reshape2 (>= 1.4)
Packaged: 2016-08-01 12:18:10 UTC; jamesware

Package: denpro
Version: 0.8.0
Date: 2005-11-16
Title: Visualization of multivariate density functions and estimates with level set trees and shape trees, and visualization of multivariate data with tail trees
Author: Jussi Klemel� <klemela@rumms.uni-mannheim.de>
Maintainer: Jussi Klemel� <klemela@rumms.uni-mannheim.de>
Depends: R
Description:
The package provides functions to construct level set trees
of some multivariate density estimates and density functions.
With level set trees we may visualize
the number and location of modes,
the relative importance of the modes,
the barycenters of the separated regions of level sets,
and skewness and kurtosis of the density.
The visualization methods may be applied in exploratory data analysis,
to make graphical inference on the existence of the modes,
and to apply graphical methods to choose the smoothing parameter.
The package provides also functions to construct shape trees of connected level sets.
Visualization with level set trees and shape trees is in many cases more
effective and easy to use than the method of looking at slices and
projections of a density function.
The package implements the kernel estimator
but the package may be applied for visualizing
other density estimates, which have to be setwise constant.
The package provides also tools to visualize multivariate data;
it provides parallel tail tree plots and cumulative tail frequency plots.
License: GPL version 2 or newer
URL: http://www.rni.helsinki.fi/~jsk/denpro
Packaged: Thu Nov 17 15:32:24 2005; jsk