Package: rabhit
Type: Package
Title: Inference Tool for Antibody Haplotype
Version: 0.2.5
Authors@R: c(person("Ayelet", "Peres", role=c("aut","cre"), 
                    email="peresay@biu.ac.il"),
            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 haplotypes and gene deletions from AIRR-seq data for Ig and TR chains, 
    based on J, D, or V 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://yaarilab.bitbucket.io/RAbHIT/
BugReports: https://bitbucket.org/yaarilab/rabhit/issues
LazyData: true
BuildVignettes: true
VignetteBuilder: knitr
Encoding: UTF-8
Depends: R (>= 3.5.0), ggplot2 (>= 3.2.0)
Imports: dplyr (>= 1.0.0), reshape2 (>= 1.4.3), plotly (>= 4.7.1),
        gtools (>= 3.5.0), cowplot (>= 0.9.1), readr (>= 2.1.1),
        dendextend (>= 1.9.0), data.table (>= 1.12.2), plyr (>= 1.8.5),
        ggdendro (>= 0.1.20), gridExtra (>= 2.3.0), alakazam (>=
        1.0.0), tigger (>= 1.0.0), methods (>= 3.4.4), htmlwidgets (>=
        1.3.0), gtable (>= 0.3.0), rlang (>= 0.4.0), RColorBrewer (>=
        1.1.2), tidyr (>= 1.0.0), stringi (>= 1.4.3), grid (>= 3.4.4),
        splitstackshape (>= 1.4.8), fastmatch (>= 1.1.0)
Suggests: knitr, rmarkdown, stats, graphics, grDevices
RoxygenNote: 7.2.1
NeedsCompilation: no
Collate: 'Data.R' 'rabhit.R' 'internal_functions.R' 'functions.R'
        'graphic_functions.R' 'zzz.R'
Packaged: 2023-02-06 11:55:32 UTC; ayelet
Author: Ayelet Peres [aut, cre],
  Moriah Gidoni [aut],
  Gur Yaari [aut, cph]
Maintainer: Ayelet Peres <peresay@biu.ac.il>
Repository: CRAN
Date/Publication: 2023-02-06 13:32:31 UTC
Built: R 4.1.3; ; 2023-04-17 19:37:55 UTC; windows
