Package: NetCoupler 0.1.0.9000

Luke Johnston

NetCoupler: Inference of Causal Links Between a Network and an External Variable

The 'NetCoupler' algorithm identifies potential direct effects of correlated, high-dimensional variables formed as a network with an external variable. The external variable may act as the dependent/response variable or as an independent/predictor variable to the network.

Authors:Luke Johnston [aut, cre, cph], Clemens Wittenbecher [aut, cph], Fabian Eichelmann [ctb], Helena Zacharias [ctb], Daniel Ibsen [ctb]

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NetCoupler.pdf |NetCoupler.html✨
NetCoupler/json (API)
NEWS

# Install 'NetCoupler' in R:

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

Bug tracker:https://github.com/netcoupler/netcoupler/issues

Datasets:

simulated_data - Simulated dataset with an underlying Directed Graph structure for the metabolites.

On CRAN:

4.70 score 5 stars 7 scripts 124 downloads 20 exports 56 dependencies

Last updated 10 months agofrom:af57087fc5. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Oct 31 2024
R-4.5-win	OK	Oct 31 2024
R-4.5-linux	OK	Oct 31 2024
R-4.4-win	OK	Oct 31 2024
R-4.4-mac	OK	Oct 31 2024
R-4.3-win	OK	Oct 31 2024
R-4.3-mac	OK	Oct 31 2024

Exports:%>%all_of any_of as_data_frame as_edge_tbl as_tibble classify_options contains data_frame ends_with everything last_col matches nc_estimate_exposure_links nc_estimate_network nc_estimate_outcome_links nc_standardize num_range starts_with tibble

Dependencies:abind askpass backports bdsmatrix BH BiocGenerics BiocManager checkmate cli clue cluster colorspace corpcor cpp11 DEoptimR dplyr fansi fastICA generics ggm glue graph ids igraph lattice lifecycle lmtest magrittr MASS Matrix openssl pcalg pillar pkgconfig ppcor purrr R6 RBGL Rcpp RcppArmadillo rlang robustbase sfsmisc stringi stringr sys tibble tidygraph tidyr tidyselect utf8 uuid vcd vctrs withr zoo

Getting started with NetCoupler

Rendered fromNetCoupler.Rmdusingknitr::rmarkdownon Oct 31 2024.

Last update: 2022-04-05
Started: 2020-03-16

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Convert network graphs to edge tables as tibbles/data.frames.	as_edge_tbl
Classification options for direct, ambigious, and no effect.	classify_options
Compute model estimates between an external (exposure or outcome) variable and a network.	nc_estimate_exposure_links nc_estimate_links nc_estimate_outcome_links
Create an estimate of the metabolic network as an undirected graph.	nc_estimate_network
Standardize the metabolic variables.	nc_standardize
Simulated dataset with an underlying Directed Graph structure for the metabolites.	simulated_data