recipe r-dowser

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) <doi:10.1101/2020.05.30.124446>, Hoehn et al (2021) <doi:10.1101/2021.01.06.425648>.

Homepage:

https://dowser.readthedocs.io

License:

AGPL / AGPL-3

Recipe:

/r-dowser/meta.yaml

package r-dowser

Versions:

1.1.0-1,  1.1.0-0,  1.0.0-0,  0.1.0-0

Depends:

• bioconductor-biostrings

• bioconductor-ggtree

• r-alakazam >=1.1.0

• r-ape >=5.5

• r-base >=4.2,<4.3.0a0

• r-dplyr >=0.8.1

• r-ggplot2 >=3.2.0

• r-gridextra

• r-markdown

• r-phangorn >=2.7.1

• r-phylotate

• r-rcolorbrewer

• r-rlang

• r-shazam >=1.1.0

• r-stringr

• r-tidyr

• r-tidyselect

Required By:

• r-enchantr

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install r-dowser

and update with:

conda update r-dowser

or use the docker container:

docker pull quay.io/biocontainers/r-dowser:<tag>

(see r-dowser/tags for valid values for <tag>)

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