Package: DDHFm 1.1.4

Guy Nason

DDHFm: Variance Stabilization by Data-Driven Haar-Fisz (for Microarrays)

Contains the normalizing and variance stabilizing Data-Driven Haar-Fisz algorithm. Also contains related algorithms for simulating from certain microarray gene intensity models and evaluation of certain transformations. Contains cDNA and shipping credit flow data.

Authors:Efthimios Motakis [aut], Guy Nason [aut, cre], Piotr Fryzlewicz [aut]

DDHFm_1.1.4.tar.gz
DDHFm_1.1.4.tar.gz(r-4.5-noble)DDHFm_1.1.4.tar.gz(r-4.4-noble)
DDHFm_1.1.4.tgz(r-4.4-emscripten)DDHFm_1.1.4.tgz(r-4.3-emscripten)
DDHFm.pdf |DDHFm.html✨
DDHFm/json (API)

# Install 'DDHFm' in R:

install.packages('DDHFm', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

ShipCreditFlow - Example Shipping credit flow data
cdna - Example cDNA data

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.00 score 6 scripts 406 downloads 1 mentions 16 exports 4 dependencies

Last updated 2 months agofrom:f2d222b5d6. Checks:OK: 2. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 04 2024
R-4.5-linux-x86_64	OK	Nov 04 2024

Exports:cDNAdata DDHFm ddhft.np.2 ddhft.np.inv dhhrcomp dhhrss function.from.vector genesimulator hftrialdatagen isotone KURTOSIS MOMENTS simdurbin simdurbin2 SKEW which.min.diff

Dependencies:lokern MASS sfsmisc wavethresh

An R package for variance stabilization (for microarrays)

Rendered fromDDHFm.Rnwusingutils::Sweaveon Nov 04 2024.

Last update: 2022-11-25
Started: 2013-10-21

Citation

Readme and manuals

Help Manual

Help page	Topics
Example cDNA data	cdna
Samples from the cDNA data vector	cDNAdata
Data-driven Haar-Fisz for microarrays	DDHFm
Data-Driven Haar-Fisz transformation	ddhft.np.2
Inverse Data-Driven Haar-Fisz transformation	ddhft.np.inv
Simulated genes, apply DDHFm then compute and return variance, skewness and kurtosis values	dhhrcomp
Tabulates variance, skewness and kurtosis coefficients from the output of dhhrcomp	dhhrss
Function applied for the computation of the Data-Driven Haar-Fisz transform	function.from.vector
Gene means simulator	genesimulator
Gene intensities simulator and DDHFm tester	hftrialdatagen
Performs Isotone regression using "pool-adjacent-violators" algorithm	isotone
Kurtosis Coefficient estimator	KURTOSIS
Moment estimator	MOMENTS
Example Shipping credit flow data	ShipCreditFlow
Gene intensities simulator	simdurbin
Gene intensities simulator	simdurbin2
Skewness coefficient estimator	SKEW
Find index where two vectors are closest	which.min.diff