Package: rabhit
Type: Package
Title: Inference Tool for Antibody Haplotype
Version: 0.4.0
Authors@R: c(person("Ayelet", "Peres", role=c("aut","cre"), 
                    email="ayelet.peres@yale.edu"),
            person("Moriah", "Gidoni", role=c("aut"), 
                    email="moriah.cohen@biu.ac.il"),
             person("Gur", "Yaari", role=c("aut","cph"), 
                    email="gur.yaari@biu.ac.il"))
Description: Infers V-D-J (Variable-Diversity-Joining) haplotypes and gene
    deletions from AIRR-seq (Adaptive Immune Receptor Repertoire sequencing)
    data for Ig (Immunoglobulin) and TR (T cell Receptor) chains, based on J
    (Joining), D (Diversity), or V (Variable) genes as anchor, by adapting a
    Bayesian framework.
    It also calculates a Bayes factor, a number that indicates the certainty level of the inference, for each haplotyped gene.
    Citation:
    Gidoni, et al (2019) <doi:10.1038/s41467-019-08489-3>.
    Peres and Gidoni, et al (2019) <doi:10.1093/bioinformatics/btz481>.
License: CC BY-SA 4.0
URL: https://github.com/ayeletperes/rabhit,
        https://ayeletperes.github.io/rabhit/
BugReports: https://github.com/ayeletperes/rabhit/issues
LazyData: true
BuildVignettes: true
VignetteBuilder: knitr
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: ggplot2 (>= 3.2.0), dplyr (>= 1.0.0), tidyr (>= 1.0.0),
        cowplot (>= 0.9.1), gtable (>= 0.3.0), grid, stats, utils,
        graphics, grDevices
Suggests: knitr, rmarkdown, plotly (>= 4.7.1), htmlwidgets (>= 1.3.0),
        ggdendro (>= 0.1.20), piglet, testthat (>= 3.0.0)
RoxygenNote: 7.3.3
NeedsCompilation: no
Config/testthat/edition: 3
Collate: 'Data.R' 'rabhit.R' 'asc_support.R' 'internal_functions.R'
        'functions.R' 'graphic_functions.R' 'zzz.R'
Packaged: 2026-07-16 19:11:48 UTC; ayelet
Author: Ayelet Peres [aut, cre],
  Moriah Gidoni [aut],
  Gur Yaari [aut, cph]
Maintainer: Ayelet Peres <ayelet.peres@yale.edu>
Repository: CRAN
Date/Publication: 2026-07-24 09:30:02 UTC
Built: R 4.5.3; ; 2026-09-01 13:59:38 UTC; windows
