B Cell Receptor Phylogenetics Toolkit

Provides a set of functions for inferring, visualizing, and analyzing B cell phylogenetic trees. Provides methods to 1) reconstruct unmutated ancestral sequences, 2) build B cell phylogenetic trees using multiple methods, 3) visualize trees with metadata at the tips, 4) reconstruct intermediate sequences, 5) detect biased ancestor-descendant relationships among metadata types Workflow examples available at documentation site (see URL). Citations: Hoehn et al (2020) , Hoehn et al (2021) .


Reference manual

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0.1.0 by Kenneth Hoehn, 6 months ago


Report a bug at https://bitbucket.org/kleinstein/dowser/issues

Browse source code at https://github.com/cran/dowser

Authors: Kenneth Hoehn [aut, cre] , Susanna Marquez [ctb] , Jason Vander Heiden [ctb] , Steven Kleinstein [aut, cph]

Documentation:   PDF Manual  

AGPL-3 license

Imports alakazam, ape, Biostrings, dplyr, ggtree, graphics, gridExtra, markdown, methods, phangorn, phylotate, RColorBrewer, rlang, shazam, stats, stringr, tidyselect, tidyr, utils

Depends on ggplot2

Suggests knitr, rmarkdown, testthat

See at CRAN