dplyr (>= 0.5.0), reshape2, plotly (>= 4.7.1), gtools (>=
3.5.0), cowplot (>= 0.9.1), stats, dendextend (>= 1.9.0),
data.table, ggdendro (>= 0.1.20), gridExtra, alakazam (>=
0.2.10), tigger (>= 0.2.11), methods, htmlwidgets, gtable,
grDevices, rlang, RColorBrewer, tidyr, stringi

Infers V-D-J haplotypes and gene deletions from AIRR-seq data,
based on IGHJ, IGHD or IGHV 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>.
'Data.R' 'rabhit.R' 'internal_functions.R' 'functions.R'
'graphic_functions.R' 'zzz.R'

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>.

knitr, rmarkdown, stats, graphics, grDevices

Generate Codes to Uniquely and Robustly Identify Individuals for
Animal Behavior Studies
c( person(given = c("Andrew", "Taylor"), family = "Burchill", role = c("aut", "cre"), email = "andrew.burchill@asu.edu"), person(given = c("Theodore", "P."), family = "Pavlic", role = "ctb"))
Facilitates the design and generation of optimal color (or symbol) codes that can be used to mark and identify individual animals. These codes are made such that the IDs are robust to partial erasure: even if sections of the code are lost, the entire identity of the animal can be reconstructed. Thus, animal subjects are not confused and no ambiguity is introduced.
numbers, polynom, stringdist, stats, utils
Andrew Taylor Burchill [aut, cre],
Theodore P. Pavlic [ctb]

numbers, polynom, shiny, stringdist, stats, utils