DOI: 10.18129/B9.bioc.OVESEG    

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see OVESEG.

OVESEG-test to detect tissue/cell-specific markers

Bioconductor version: 3.12

An R package for multiple-group comparison to detect tissue/cell-specific marker genes among subtypes. It provides functions to compute OVESEG-test statistics, derive component weights in the mixture null distribution model and estimate p-values from weightedly aggregated permutations. Obtained posterior probabilities of component null hypotheses can also portrait all kinds of upregulation patterns among subtypes.

Author: Lulu Chen <luluchen at vt.edu>

Maintainer: Lulu Chen <luluchen at vt.edu>

Citation (from within R, enter citation("OVESEG")):


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biocViews CellBiology, GeneExpression, MultipleComparison, Software
Version 1.6.0
In Bioconductor since BioC 3.9 (R-3.6) (2 years)
License GPL-2
Depends R (>= 3.6)
Imports stats, utils, methods, BiocParallel, SummarizedExperiment, limma, fdrtool, Rcpp
LinkingTo Rcpp
Suggests knitr, rmarkdown, BiocStyle, testthat, ggplot2, gridExtra, grid, reshape2, scales
SystemRequirements C++11
BugReports https://github.com/Lululuella/OVESEG
Depends On Me
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Source Package OVESEG_1.6.0.tar.gz
Windows Binary OVESEG_1.6.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) OVESEG_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/OVESEG
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/OVESEG
Package Short Url https://bioconductor.org/packages/OVESEG/
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