Description
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>.
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Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | ERROR |
| r-devel-linux-x86_64-debian-gcc | ERROR |
| r-devel-linux-x86_64-fedora-clang | ERROR |
| r-devel-linux-x86_64-fedora-gcc | ERROR |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | ERROR |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (17 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
CRAN incoming feasibility
Maintainer: ‘Kenneth Hoehn <kenneth.b.hoehn@dartmouth.edu>’
Found the following (possibly) invalid file URIs:
URI: Resolve-Light-Chains-Vignette.md
From: inst/doc/Building-Trees-Vignette.pdf
URI: Plotting-Trees-Vignette.md
From: inst/doc/Measurable-Evolution.pdf
URI: Building-Trees-Vignette.md
From: inst/doc/Resolve-Light-Chains-Vignette.pdf
ERROR
r-devel-linux-x86_64-debian-clang
package dependencies
Packages required but not available: 'alakazam', 'Biostrings', 'shazam' Package suggested but not available for checking: ‘pwalign’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
NOTE
r-devel-linux-x86_64-debian-gcc
CRAN incoming feasibility
Maintainer: ‘Kenneth Hoehn <kenneth.b.hoehn@dartmouth.edu>’
Found the following (possibly) invalid file URIs:
URI: Resolve-Light-Chains-Vignette.md
From: inst/doc/Building-Trees-Vignette.pdf
URI: Plotting-Trees-Vignette.md
From: inst/doc/Measurable-Evolution.pdf
URI: Building-Trees-Vignette.md
From: inst/doc/Resolve-Light-Chains-Vignette.pdf
ERROR
r-devel-linux-x86_64-debian-gcc
whether package can be installed
Installation failed. See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/dowser.Rcheck/00install.out’ for details.
ERROR
r-devel-linux-x86_64-fedora-clang
whether package can be installed
Installation failed. See ‘/data/gannet/ripley/R/packages/tests-clang/dowser.Rcheck/00install.out’ for details.
ERROR
r-devel-linux-x86_64-fedora-gcc
whether package can be installed
Installation failed. See ‘/data/gannet/ripley/R/packages/tests-devel/dowser.Rcheck/00install.out’ for details.
OK
r-devel-macos-arm64
*
OK
r-devel-windows-x86_64
*
OK
r-oldrel-macos-arm64
*
ERROR
r-oldrel-macos-x86_64
examples
Running examples in ‘dowser-Ex.R’ failed The error most likely occurred in: > ### Name: maskCodons > ### Title: 'maskCodons' Masks codons split by insertions > ### Aliases: maskCodons > > ### ** Examples > > s = "ATCATCATC..." > q = "ATCTTTATCATC" > print(maskCodons(1,q,s,TRUE)) Error in loadNamespace(x) : there is no package called ‘pwalign’ Calls: print ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted
NOTE
r-oldrel-macos-x86_64
package dependencies
Package suggested but not available for checking: ‘pwalign’
OK
r-oldrel-windows-x86_64
*
OK
r-patched-linux-x86_64
*
OK
r-release-linux-x86_64
*
OK
r-release-macos-arm64
*
OK
r-release-macos-x86_64
*
OK
r-release-windows-x86_64
*
Check History
ERROR 9 OK · 0 NOTE · 0 WARNING · 5 ERROR · 0 FAILURE Mar 9, 2026
ERROR
r-devel-linux-x86_64-debian-clang
CRAN incoming feasibility
Maintainer: ‘Kenneth Hoehn <kenneth.b.hoehn@dartmouth.edu>’
Found the following (possibly) invalid file URIs:
URI: Resolve-Light-Chains-Vignette.md
From: inst/doc/Building-Trees-Vignette.pdf
URI: Plotting-Trees-Vignette.md
From: inst/doc/Measurable-Evolution.pdf
URI: Building-Trees-Vignette.md
From: inst/doc/Resolve-Light-Chains-Vignette.pdf
ERROR
r-devel-linux-x86_64-debian-gcc
CRAN incoming feasibility
Maintainer: ‘Kenneth Hoehn <kenneth.b.hoehn@dartmouth.edu>’
Found the following (possibly) invalid file URIs:
URI: Resolve-Light-Chains-Vignette.md
From: inst/doc/Building-Trees-Vignette.pdf
URI: Plotting-Trees-Vignette.md
From: inst/doc/Measurable-Evolution.pdf
URI: Building-Trees-Vignette.md
From: inst/doc/Resolve-Light-Chains-Vignette.pdf
ERROR
r-devel-linux-x86_64-fedora-clang
whether package can be installed
Installation failed. See ‘/data/gannet/ripley/R/packages/tests-clang/dowser.Rcheck/00install.out’ for details.
ERROR
r-devel-linux-x86_64-fedora-gcc
whether package can be installed
Installation failed. See ‘/data/gannet/ripley/R/packages/tests-devel/dowser.Rcheck/00install.out’ for details.
ERROR
r-oldrel-macos-x86_64
package dependencies
Package suggested but not available for checking: ‘pwalign’
Dependency Network
Version History
new
2.4.0
Mar 9, 2026