Package: bayesbio 1.0.1.9000

bayesbio: Miscellaneous Functions for Bioinformatics and Bayesian Statistics

A hodgepodge of hopefully helpful functions. Two of these perform shrinkage estimation: one using a simple weighted method where the user can specify the degree of shrinkage required, and one using James-Stein shrinkage estimation for the case of unequal variances.

Authors:Andrew McKenzie [aut, cre]

bayesbio_1.0.1.9000.tar.gz
bayesbio_1.0.1.9000.zip(r-4.7)bayesbio_1.0.1.9000.zip(r-4.6)bayesbio_1.0.1.9000.zip(r-4.5)
bayesbio_1.0.1.9000.tgz(r-4.6-any)bayesbio_1.0.1.9000.tgz(r-4.5-any)
bayesbio_1.0.1.9000.tar.gz(r-4.7-any)bayesbio_1.0.1.9000.tar.gz(r-4.6-any)
bayesbio_1.0.1.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
bayesbio/json (API)

# Install 'bayesbio' in R:

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

Bug tracker:https://github.com/andymckenzie/bayesbio/issues

On CRAN:

3.31 score 1 stars 41 scripts 152 downloads 1 mentions 18 exports 0 dependencies

Last updated from:1389283ba9. Checks:7 WARNING, 2 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	WARNING	112
source / vignettes	OK	159
linux-release-x86_64	WARNING	111
macos-release-arm64	WARNING	124
macos-oldrel-arm64	WARNING	172
windows-devel	WARNING	61
windows-release	WARNING	69
windows-oldrel	WARNING	62
wasm-release	OK	89

Exports:a_hat_mle allDups cbindFill covariatesTable createStrings ggHorizBar jaccardSets makeMatSym mgsub nearestTime nearestTimeandID p.adjust.nlp pubmedQuery std_error subsupDiag unequalVarShrink weightedShrink write.delim

Dependencies:

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Likelihood function of the James-Stein shrinkage factor.	a_hat_mle
Identify all duplicates values in a vector.	allDups
bayesbio: Miscellaneous functions useful in bioinformatics and Bayesian statistics	bayesbio-package bayesbio
cbind while converting missing entries to NA.	cbindFill
Create a table summarizing covariates segregated by levels of a diagnosis.	covariatesTable
Creates random, unique character strings.	createStrings
Create a color-labeled horizontal bar plot in ggplot2.	ggHorizBar
Jaccard index of two character vectors.	jaccardSets
Replace the upper or lower triangle of a matrix with the other to make it symmetric.	makeMatSym
Multiple pattern gsub.	mgsub
Merge data frames based on the nearest datetime differences.	nearestTime
Merge data frames based on the nearest datetime differences and an ID column. Also removes duplicate column names from the result.	nearestTimeandID
Adjust p-values where n is less than p.	p.adjust.nlp
Perform PubMed queries on 2x2 combinations of term vectors.	pubmedQuery
Find the standard error of the sampling distribution of a statistic.	std_error
Add values to the super- and sub-diagonals of a matrix.	subsupDiag
Perform James-Stein shrinkage estimation using unequal variances	unequalVarShrink
Weighted shrinkage estimation.	weightedShrink
Write a data frame to a file with delimiter style.	write.delim