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 (2022) <doi:10.1371/journal.pcbi.1009885>, Hoehn et al (2021) <doi:10.1101/2021.01.06.425648>.
Version: 2.3 Depends: R (≥ 4.0), ggplot2 (≥ 3.4.0) Imports: airr, alakazam (≥ 1.1.0), ape (≥ 5.6), Biostrings, dplyr (≥ 1.0), ggtree, graphics, gridExtra, markdown, methods, phangorn (≥ 2.7.1), phylotate, RColorBrewer, rlang, shazam (≥ 1.1.1), stats, stringr, tidyselect, tidyr, utils Suggests: knitr, rmarkdown, testthat, pwalign Published: 2024-10-22 DOI: 10.32614/CRAN.package.dowser Author: Kenneth Hoehn [aut, cre], Cole Jensen [ctb], Susanna Marquez [ctb], Jason Vander Heiden [ctb], Steven Kleinstein [aut, cph] Maintainer: Kenneth Hoehn <kenneth.b.hoehn at dartmouth.edu> BugReports: https://bitbucket.org/kleinstein/dowser/issues License: AGPL-3 URL: https://dowser.readthedocs.io NeedsCompilation: no Citation: dowser citation info Materials: README NEWS CRAN checks: dowser resultsRetroSearch is an open source project built by @garambo | Open a GitHub Issue
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