DESCRIPTION

Package: IgGeneUsage
Type: Package
Title: Differential gene usage in immune repertoires
Version: 1.17.27
Authors@R: 
    person(given = "Simo",  
           family = "Kitanovski",
           role = c("aut", "cre"),
           email = "simo.kitanovski@uni-due.de")
Description: Detection of biases in the usage of immunoglobulin (Ig) genes 
    is an important task in immune repertoire profiling. IgGeneUsage detects 
    aberrant Ig gene usage between biological conditions using a probabilistic 
    model which is analyzed computationally by Bayes inference. With this
    IgGeneUsage also avoids some common problems related to the current 
    practice of null-hypothesis significance testing.
License: MIT + file LICENSE
Depends: 
    R (>= 4.2.0)
Imports: 
    methods,
    reshape2 (>= 1.4.3),
    Rcpp (>= 0.12.0),
    RcppParallel (>= 5.0.1),
    rstan (>= 2.18.1),
    rstantools (>= 2.2.0),
    SummarizedExperiment,
    tidyr
Suggests: 
    BiocStyle,
    knitr,
    rmarkdown,
    testthat (>= 2.1.0),
    ggplot2,
    ggforce,
    ggrepel,
    patchwork
LinkingTo: 
    BH (>= 1.66.0),
    Rcpp (>= 0.12.0),
    RcppEigen (>= 0.3.3.3.0),
    RcppParallel (>= 5.0.1),
    rstan (>= 2.18.1),
    StanHeaders (>= 2.18.0)
SystemRequirements: GNU make
Encoding: UTF-8
LazyData: false
NeedsCompilation: yes
biocViews: DifferentialExpression, Regression, Genetics, Bayesian, 
    BiomedicalInformatics, ImmunoOncology, MathematicalBiology
BugReports: https://github.com/snaketron/IgGeneUsage/issues
URL: https://github.com/snaketron/IgGeneUsage
RoxygenNote: 6.1.1
VignetteBuilder: knitr
Biarch: true