Package: denoiSeq 0.1.1

denoiSeq: Differential Expression Analysis Using a Bottom-Up Model

Given count data from two conditions, it determines which transcripts are differentially expressed across the two conditions using Bayesian inference of the parameters of a bottom-up model for PCR amplification. This model is developed in Ndifon Wilfred, Hilah Gal, Eric Shifrut, Rina Aharoni, Nissan Yissachar, Nir Waysbort, Shlomit Reich Zeliger, Ruth Arnon, and Nir Friedman (2012), <http://www.pnas.org/content/109/39/15865.full>, and results in a distribution for the counts that is a superposition of the binomial and negative binomial distribution.

Authors:Gershom Buri [aut, cre], Wilfred Ndifon [aut]

denoiSeq_0.1.1.tar.gz
denoiSeq_0.1.1.zip(r-4.7)denoiSeq_0.1.1.zip(r-4.6)denoiSeq_0.1.1.zip(r-4.5)
denoiSeq_0.1.1.tgz(r-4.6-any)denoiSeq_0.1.1.tgz(r-4.5-any)
denoiSeq_0.1.1.tar.gz(r-4.7-any)denoiSeq_0.1.1.tar.gz(r-4.6-any)
denoiSeq_0.1.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
denoiSeq/json (API)
NEWS

# Install 'denoiSeq' in R:
install.packages('denoiSeq', repos = c('https://buriom.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/buriom/denoiseq/issues

Datasets:

On CRAN:

Conda:

3.70 score 10 scripts 227 downloads 7 exports 0 dependencies

Last updated from:96e6299657. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING180
source / vignettesOK172
linux-release-x86_64WARNING144
macos-release-arm64WARNING163
macos-oldrel-arm64WARNING144
windows-develWARNING91
windows-releaseWARNING90
windows-oldrelWARNING86
wasm-releaseOK104

Exports:denoiseqgetSamplesOfresultssetInitValuessetReplicatessetStepSizestunedStepSize

Dependencies:

denoiSeq: Differential expression analysis using a bottom-up approach

Gershom Buri, Wilfred Ndifon

Rendered fromdenoiSeq-vignette.Rmdusingknitr::rmarkdownon May 05 2026.

Last update: 2018-01-17
Started: 2017-05-03