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DESCRIPTION
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DESCRIPTION
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Package: NormalyzerDE
Title: Evaluation of normalization methods and calculation of differential expression analysis statistics
Version: 1.13.2
Author: Jakob Willforss
Authors@R: c(
person("Jakob", "Willforss", email="[email protected]", role=c("aut", "cre")),
person("Aakash", "Chawade", role="aut"),
person("Fredrik", "Levander", email="[email protected]", role=c("aut", "ths")))
Description: NormalyzerDE provides screening of normalization methods for
LC-MS based expression data. It calculates a range of normalized matrices
using both existing approaches and a novel time-segmented approach,
calculates performance measures and generates an evaluation report.
Furthermore, it provides an easy utility for Limma- or ANOVA- based
differential expression analysis.
Imports:
vsn,
preprocessCore,
limma,
MASS,
ape,
car,
ggplot2,
methods,
Biobase,
RcmdrMisc,
raster,
utils,
stats,
SummarizedExperiment,
matrixStats,
ggforce
Suggests:
knitr,
testthat,
rmarkdown,
roxygen2,
hexbin,
BiocStyle
VignetteBuilder: knitr
biocViews:
Normalization, MultipleComparison, Visualization, Bayesian, Proteomics, Metabolomics, DifferentialExpression
License: Artistic-2.0
Encoding: UTF-8
RoxygenNote: 7.1.0
URL: https://github.com/ComputationalProteomics/NormalyzerDE
Depends: R (>= 3.6)