rabhit: Inference Tool for Antibody Haplotype

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>.

Version: 0.1.1
Depends: R (≥ 3.2.5), ggplot2 (≥ 2.0.0)
Imports: 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
Suggests: knitr, rmarkdown
Published: 2019-05-08
Author: Ayelet Peres [aut, cre], Moriah Gidoni [aut], Gur Yaari [aut, cph]
Maintainer: Ayelet Peres <peresay at biu.ac.il>
BugReports: https://bitbucket.org/yaarilab/haplotyper/issues
License: CC BY-SA 4.0
URL: https://yaarilab.bitbucket.io/RAbHIT/
NeedsCompilation: no
Materials: README NEWS
CRAN checks: rabhit results

Downloads:

Reference manual: rabhit.pdf
Vignettes: Haplotype and deletion inference from B-cell repertiore
Package source: rabhit_0.1.1.tar.gz
Windows binaries: r-devel: rabhit_0.1.1.zip, r-release: rabhit_0.1.1.zip, r-oldrel: rabhit_0.1.1.zip
OS X binaries: r-release: rabhit_0.1.1.tgz, r-oldrel: rabhit_0.1.1.tgz
Old sources: rabhit archive

Linking:

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