Racmacs: Antigenic Cartography Macros

A toolkit for making antigenic maps from immunological assay data, in order to quantify and visualize antigenic differences between different pathogen strains as described in Smith et al. (2004) <doi:10.1126/science.1097211> and used in the World Health Organization influenza vaccine strain selection process. Additional functions allow for the diagnostic evaluation of antigenic maps and an interactive viewer is provided to explore antigenic relationships amongst several strains and incorporate the visualization of associated genetic information.

Version: 1.2.9
Depends: R (≥ 4.0)
Imports: Rcpp, jsonlite, ks, brotli, shiny, shinyFiles, shinyjs, htmlwidgets, ggplot2 (≥ 3.0.0), htmltools, rmarchingcubes, shape, ellipsis, MASS, magrittr, igraph, dplyr, vctrs, rlang
LinkingTo: Rcpp, RcppArmadillo, RcppProgress, RcppEnsmallen, rapidjsonr
Suggests: testthat, r3js, knitr, rmarkdown, rstudioapi, plotly, geometry, readxl, stringr, tibble, tidyr, base64enc, lifecycle, MCMCpack, spelling
Published: 2023-11-30
Author: Sam Wilks [aut, cre]
Maintainer: Sam Wilks <sw463 at cam.ac.uk>
BugReports: https://github.com/acorg/Racmacs/issues
License: AGPL-3
URL: https://acorg.github.io/Racmacs/, https://github.com/acorg/Racmacs/
NeedsCompilation: yes
Language: en-GB
Materials: README NEWS
CRAN checks: Racmacs results

Documentation:

Reference manual: Racmacs.pdf
Vignettes: Working with sequence data
Assessing map uncertainty
Comparing maps
Customising map appearance
Making an antigenic map from titer data
Merging maps

Downloads:

Package source: Racmacs_1.2.9.tar.gz
Windows binaries: r-prerel: Racmacs_1.2.9.zip, r-release: Racmacs_1.2.9.zip, r-oldrel: Racmacs_1.2.9.zip
macOS binaries: r-prerel (arm64): Racmacs_1.2.9.tgz, r-release (arm64): Racmacs_1.2.9.tgz, r-oldrel (arm64): Racmacs_1.2.9.tgz, r-prerel (x86_64): Racmacs_1.2.9.tgz, r-release (x86_64): Racmacs_1.2.9.tgz
Old sources: Racmacs archive

Linking:

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