RepeatedHighDim {RepeatedHighDim} | R Documentation |
RepeatedHighDim Package
Description
A comprehensive toolkit for repeated high-dimensional analysis.
Details
The RepeatedHighDim-package is a collection of functions for the analysis of high-dimensional repeated measures data, e.g. from Omics experiments. It provides function for outlier detection, differential expression analysis, self-contained gene-set testing, and generation of correlated binary data.
For more information and examples, please refer to the package documentation and the tutorial available at https://software.klausjung-lab.de/.
Functions
This package includes the following functions:
B:
-
bag
: Calculates the bag.
D:
-
depmed
: Calculates the depth median.
F:
-
fc_ci
: Calculates adjusted confidence intervals. -
fc_plot
: Creates a volcano plot of adjusted confidence intervals.
G:
-
GA_diagplot
: Generates a diagnostic plot for comparing two correlation matrices. -
gem
: Plots a gemstone to an interactive graphics device. -
GlobTestMissing
: Detects global group effects. -
gridfun
: Specifies a grid for calculating halfspace location depths.
H:
-
hldepth
: Calculates the halfspace location depth.
I:
-
iter_matrix
: Implements a genetic algorithm for generating correlated binary data.
L:
-
loop
: Calculates the fence and the loop.
N:
-
netRNA
: network meta-analysis using gene expression data.
R:
-
RHighDim
: Detects global group effects. -
rho_bounds
: Calculates lower and upper bounds for pairwise correlations. -
rmvbinary_EP
: Simulates correlated binary variables using the algorithm by Emrich and Piedmonte (1991). -
rmvbinary_QA
: Simulates correlated binary variables using the algorithm by Qaqish (2003).
S:
-
sequence_probs
: Calculates probabilities for binary sequences. -
start_matrix
: Sets up the start matrix. -
summary_RHD
: Provides a summary of the RHighDim function.
T:
-
TestStatSimple
: Calculates the test statistic for RHighDim. -
TestStatSP
: Calculates the test statistic for RHighDim.
Author(s)
Maintainer: Klaus Jung (klaus.jung@tiho-hannover.de)
Other contributors:
Jochen Kruppa (j.kruppa@hs-osnabrueck.de)
Sergej Ruff (Sergej.Ruff@tiho-hannover.de)
If you have any questions, suggestions, or issues, please feel free to contact the maintainer, Klaus Jung (klaus.jung@tiho-hannover.de).
See Also
For more information, please refer to the package's documentation and the tutorial: https://software.klausjung-lab.de/.