Package: ALDEx2
Type: Package
Title: Analysis Of Differential Abundance Taking Sample Variation Into
        Account
Version: 1.14.1
Date: 2017-10-11
Author: Greg Gloor, Ruth Grace Wong, Andrew Fernandes, Arianne Albert, Matt Links,
    Thomas Quinn, Jia Rong Wu
Maintainer: Greg Gloor <ggloor@uwo.ca>
biocViews: ImmunoOncology, DifferentialExpression, RNASeq, DNASeq,
        ChIPSeq, GeneExpression, Bayesian, Sequencing, Software,
        Microbiome, Metagenomics
Description: A differential abundance analysis for the comparison of two or more
    conditions. Useful for analyzing data from standard RNA-seq or meta-RNA-seq assays
    as well as selected and unselected values from in-vitro sequence selections.
    Uses a Dirichlet-multinomial model to infer abundance from counts, optimized for
    three or more experimental replicates. The method infers biological and sampling
    variation to calculate the expected false discovery rate, given the variation, based
    on a Wilcox rank test or Welch t-test (via aldex.ttest), or a glm and Kruskal-Wallis
    test (via aldex.glm). Reports p-values and Benjamini-Hochberg corrected p-values.
License: file LICENSE
URL: https://github.com/ggloor/ALDEx2
BugReports: https://github.com/ggloor/ALDEx2/issues
RoxygenNote: 6.0.1
Depends: methods, stats
Imports: BiocParallel, GenomicRanges, IRanges, S4Vectors,
        SummarizedExperiment, multtest
Suggests: testthat
git_url: https://git.bioconductor.org/packages/ALDEx2
git_branch: RELEASE_3_8
git_last_commit: a8b970c
git_last_commit_date: 2019-01-04
Date/Publication: 2019-01-04
NeedsCompilation: no
Packaged: 2019-01-05 03:16:30 UTC; biocbuild
Built: R 3.5.2; ; 2019-01-05 11:37:21 UTC; windows
