bayesbio: Miscellaneous Functions for Bioinformatics and Bayesian Statistics
Version 1.0.0

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.

Browse man pages Browse package API and functions Browse package files

AuthorAndrew McKenzie [aut, cre]
Date of publication2016-05-24 16:32:42
MaintainerAndrew McKenzie <amckenz@gmail.com>
LicenseGPL-3
Version1.0.0
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("bayesbio")

Man pages

a_hat_mle: Likelihood function of the James-Stein shrinkage factor.
allDups: Identify all duplicates values in a vector.
bayesbio: bayesbio: Miscellaneous functions useful in bioinformatics...
cbindFill: cbind while converting missing entries to NA.
createStrings: Creates random, unique character strings.
ggHorizBar: Create a color-labeled horizontal bar plot in ggplot2.
jaccardSets: Jaccard index of two character vectors.
mgsub: Multiple pattern gsub.
nearestTime: Merge data frames based on the nearest datetime differences.
nearestTimeandID: Merge data frames based on the nearest datetime differences...
p.adjust.nlp: Adjust p-values where n is less than p.
pubmedQuery: Perform PubMed queries on 2x2 combinations of term vectors.
subsupDiag: Add values to the super- and sub-diagonals of a matrix.
unequalVarShrink: Perform James-Stein shrinkage estimation using unequal...
weightedShrink: Weighted shrinkage estimation.

Functions

a_hat_mle Man page Source code
allDups Man page Source code
bayesbio Man page
bayesbio-package Man page
cbindFill Man page Source code
createStrings Man page Source code
ggHorizBar Man page Source code
jaccardSets Man page Source code
mgsub Man page Source code
nearestTime Man page Source code
nearestTimeandID Man page Source code
p.adjust.nlp Man page Source code
pubmedQuery Man page Source code
subsupDiag Man page Source code
unequalVarShrink Man page Source code
weightedShrink Man page Source code

Files

tests
tests/testthat.R
tests/testthat
tests/testthat/test_dates.R
tests/testthat/test_misc.R
NAMESPACE
NEWS.md
R
R/pubmedQuery.R
R/ggHorizBar.R
R/p.adjust.nlp.R
R/mergeTime.R
R/cbindFill.R
R/supsubDiag.R
R/weightedShrinkage.R
R/bayesbio_package.R
R/unequalVarShink.R
R/allDups.R
R/mgsub.R
R/jaccardSets.R
R/createStrings.R
MD5
DESCRIPTION
man
man/a_hat_mle.Rd
man/pubmedQuery.Rd
man/nearestTimeandID.Rd
man/nearestTime.Rd
man/createStrings.Rd
man/p.adjust.nlp.Rd
man/weightedShrink.Rd
man/unequalVarShrink.Rd
man/cbindFill.Rd
man/mgsub.Rd
man/subsupDiag.Rd
man/jaccardSets.Rd
man/allDups.Rd
man/ggHorizBar.Rd
man/bayesbio.Rd
bayesbio documentation built on May 19, 2017, 2:36 p.m.