Package: foodingraph 0.1.0

foodingraph: Food Network Inference and Visualization

Displays a weighted undirected food graph from an adjacency matrix. Can perform confidence-interval bootstrap inference with mutual information or maximal information coefficient. Based on my Master 1 internship at the Bordeaux Population Health center. References : Reshef et al. (2011) <doi:10.1126/science.1205438>, Meyer et al. (2008) <doi:10.1186/1471-2105-9-461>, Liu et al. (2016) <doi:10.1371/journal.pone.0158247>.

Authors:Victor Gasque [cre, aut], Boris Hejblum [aut], Cecilia Samieri [aut]

foodingraph_0.1.0.tar.gz
foodingraph_0.1.0.zip(r-4.5)foodingraph_0.1.0.zip(r-4.4)foodingraph_0.1.0.zip(r-4.3)
foodingraph_0.1.0.tgz(r-4.4-any)foodingraph_0.1.0.tgz(r-4.3-any)
foodingraph_0.1.0.tar.gz(r-4.5-noble)foodingraph_0.1.0.tar.gz(r-4.4-noble)
foodingraph_0.1.0.tgz(r-4.4-emscripten)foodingraph_0.1.0.tgz(r-4.3-emscripten)
foodingraph.pdf |foodingraph.html✨
foodingraph/json (API)

# Install 'foodingraph' in R:

install.packages('foodingraph', repos = c('https://vgasque.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/vgasque/foodingraph/issues

On CRAN:

3.60 score 4 stars 3 scripts 152 downloads 9 exports 55 dependencies

Last updated 5 years agofrom:b920b3e245. Checks:OK: 1 NOTE: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 09 2024
R-4.5-win	NOTE	Nov 09 2024
R-4.5-linux	NOTE	Nov 09 2024
R-4.4-win	NOTE	Nov 09 2024
R-4.4-mac	NOTE	Nov 09 2024
R-4.3-win	NOTE	Nov 09 2024
R-4.3-mac	NOTE	Nov 09 2024

Exports:boot_cat_bin boot_simulated_cat_bin compare_graphs family_palette graph_from_links_nodes graph_from_matrix links_nodes_from_mat mic_adj_matrix save_graph

Dependencies:cachem cli colorspace cowplot cpp11 dplyr fansi farver fastmap generics ggforce ggplot2 ggraph ggrepel glue graphlayouts gridExtra gtable igraph isoband labeling lattice lifecycle magrittr MASS Matrix memoise mgcv minerva munsell nlme pillar pkgconfig polyclip purrr R6 RColorBrewer Rcpp RcppArmadillo RcppEigen rlang scales stringi stringr systemfonts tibble tidygraph tidyr tidyselect tweenr utf8 vctrs viridis viridisLite withr

Quick introduction to foodingraph

Victor Gasque, Cecilia Samieri, Boris Hejblum

Rendered fromFoodingraph_quickstart.Rmdusingknitr::rmarkdownon Nov 09 2024.

Last update: 2019-08-30
Started: 2019-08-22

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Bootstrap inference on binary and categorical variables	boot_cat_bin
Confidence-interval bootstraps on simulated independent variables	boot_simulated_cat_bin
Compare two graphs	compare_graphs
Generate a color palette for nodes family	family_palette
foodingraph: a package for food network inference	foodingraph-package foodingraph
Display a graph from a list of links and nodes	graph_from_links_nodes
Display a graph from an adjacency matrix	graph_from_matrix
Extracts links and nodes	links_nodes_from_mat
Computes a MIC adjacency matrix	mic_adj_matrix
Save graph	save_graph