BinQuasi: Analyzing Replicated ChIP Sequencing Data Using Quasi-Likelihood

Identify peaks in ChIP-seq data with biological replicates using a one-sided quasi-likelihood ratio test in quasi-Poisson or quasi-negative binomial models.

Version: 0.1-5
Imports: edgeR, mgcv, pracma, quadprog, Rsamtools, GenomicAlignments, GenomicRanges, IRanges, csaw (≥ 1.12.0), SummarizedExperiment, BiocGenerics, S4Vectors, RMySQL
Suggests: nleqslv, knitr, rmarkdown
Published: 2018-06-21
Author: Emily Goren [aut, cre], Steve Lund [aut] (The author of the QuasiSeq package, from which all functions were modified to produce this package.), Long Qu [aut] (The author of the QuasiSeq package, from which all functions were modified to produce this package.), Ian Marschner [aut] (The author of glm2::glm.fit2, which was modified slightly leading to glm.fit3 in this package.), Daniel Gerhard [aut] (The author of mcprofile::orglm.fit, which was modified slightly and used under the same name in this package.), R Core Team [aut] (The author of stats::glm.fit, which was modified slightly leading to glm.fit3 in this package.)
Maintainer: Emily Goren <emily.goren at gmail.com>
BugReports: https://github.com/emilygoren/BinQuasi/issues
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
URL: https://github.com/emilygoren/BinQuasi
NeedsCompilation: yes
Materials: README
CRAN checks: BinQuasi results

Downloads:

Reference manual: BinQuasi.pdf
Vignettes: BinQuasi Quick Start Guide
Package source: BinQuasi_0.1-5.tar.gz
Windows binaries: r-devel: BinQuasi_0.1-5.zip, r-release: BinQuasi_0.1-5.zip, r-oldrel: BinQuasi_0.1-5.zip
OS X binaries: r-release: not available, r-oldrel: not available
Old sources: BinQuasi archive

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