This package is used to apply the QL, QLShrink and
QLSpline methods (Lund, Nettleton, McCarthy, and Smyth, 2012)
to quasi-Poisson or quasi-negative binomial models for
identifying differentially expressed genes in RNA-seq data.

Analyzing RNA Sequencing Count Tables Using Quasi-Likelihood
c(
person("Steve", "Lund", role=c("aut"), email="lundsp@gmail.com"),
person("Long", "Qu", role=c("aut", "cre","ctb"), email="rtistician@gmail.com"),
person("Klirk", "Bhasavanich", role="aut"),
person("Ian", "Marschner", role="aut", comment="The author of glm2::glm.fit2, which was modified slightly leading to glm.fit3 in this package."),
person("", "R Core Team", role="aut", comment="The author of stats::glm.fit, which was modified slightly leading to glm.fit3 in this package.")
)
edgeR, mgcv, pracma, uniqueAtomMat (>= 0.1-1), utils,
grDevices, graphics
Identify differentially expressed genes in RNA-seq count data using quasi-Poisson or quasi-negative binomial models with 'QL', 'QLShrink' and 'QLSpline' methods described by Lund, Nettleton, McCarthy, and Smyth (2012) <DOI:10.1515/1544-6115.1826>. Report bias-reduced estimates of log fold changes.
Steve Lund [aut],
Long Qu [aut, cre, ctb],
Klirk Bhasavanich [aut],
Ian Marschner [aut] (The author of glm2::glm.fit2, which was modified
slightly leading to glm.fit3 in this package.),
R Core Team [aut] (The author of stats::glm.fit, which was modified
slightly leading to glm.fit3 in this package.)

c(
person("Steve", "Lund", role=c("aut", "cre"), email="lundsp@gmail.com"),
person("Long", "Qu", role=c("aut","ctb"), email="rtistician@gmail.com"),
person("Klirk", "Bhasavanich", role="aut"),
person("Ian", "Marschner", role="aut", comment="The author of glm2::glm.fit2, which was modified slightly leading to glm.fit3 in this package."),
person("", "R Core Team", role="aut", comment="The author of stats::glm.fit, which was modified slightly leading to glm.fit3 in this package.")
)
edgeR, mgcv, pracma, utils, grDevices, graphics
Steve Lund [aut, cre],
Long Qu [aut, ctb],
Klirk Bhasavanich [aut],
Ian Marschner [aut] (The author of glm2::glm.fit2, which was modified
slightly leading to glm.fit3 in this package.),
R Core Team [aut] (The author of stats::glm.fit, which was modified
slightly leading to glm.fit3 in this package.)