CALANGO: Comparative Analysis with Annotation-Based Genomic Components

A first-principle, phylogeny-aware comparative genomics tool for investigating associations between terms used to annotate genomic components (e.g., Pfam IDs, Gene Ontology terms,) with quantitative or rank variables such as number of cell types, genome size, or density of specific genomic elements. See the project website for more information, documentation and examples, and <doi:10.1016/j.patter.2023.100728> for the full paper.

Version:	1.0.16
Depends:	R (≥ 3.6.0)
Imports:	assertthat (≥ 0.2.1), pbmcapply (≥ 1.5.0), ape (≥ 5.3.0), rmarkdown (≥ 2.1.0), nlme (≥ 3.1.0), BiocManager (≥ 1.30.10), taxize (≥ 0.9.92), dendextend (≥ 1.15.2), heatmaply (≥ 1.1.0), ggplot2 (≥ 2.3.2), plotly (≥ 4.9.2), DT (≥ 0.13), htmltools (≥ 0.5.0), htmlwidgets (≥ 1.5.1), pkgdown (≥ 1.5.1), knitr (≥ 1.28)
Suggests:	AnnotationDbi, KEGGREST, GO.db
Published:	2023-04-26
Author:	Francisco Lobo [aut], Felipe Campelo [aut, cre], Jorge Augusto Hongo [aut], Giovanni Marques de Castro [aut], Gabriel Almeida [sad, dnc]
Maintainer:	Felipe Campelo <fcampelo at gmail.com>
BugReports:	https://github.com/fcampelo/CALANGO/issues/
License:	GPL-2
URL:	https://labpackages.github.io/CALANGO/
NeedsCompilation:	no
Language:	en-US
Citation:	CALANGO citation info
Materials:	README NEWS
In views:	Phylogenetics
CRAN checks:	CALANGO results

Documentation:

Reference manual:	CALANGO.pdf
Vignettes:	CALANGO Parameters

Downloads:

Package source:	CALANGO_1.0.16.tar.gz
Windows binaries:	r-devel: CALANGO_1.0.16.zip, r-release: CALANGO_1.0.16.zip, r-oldrel: CALANGO_1.0.16.zip
macOS binaries:	r-release (arm64): CALANGO_1.0.16.tgz, r-oldrel (arm64): CALANGO_1.0.16.tgz, r-release (x86_64): CALANGO_1.0.16.tgz, r-oldrel (x86_64): CALANGO_1.0.16.tgz
Old sources:	CALANGO archive

Linking:

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