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Package: netOmics
Title: Multi-Omics (time-course) network-based integration and interpretation
Version: 1.11.1
Authors@R: 
    person(given = "Antoine", family = "Bodein", role = c("aut", "cre"), email = "antoine.bodein.1@ulaval.ca")
Description: netOmics is a multi-omics networks builder and explorer.
    It uses a combination of network inference algorithms and and knowledge-based graphs to build multi-layered networks.
    The package can be combined with timeOmics to incorporate time-course expression data and build sub-networks from multi-omics kinetic clusters.
    Finally, from the generated multi-omics networks, propagation analyses allow the identification of missing biological functions (1), 
    multi-omics mechanisms (2) and molecules between kinetic clusters (3). This helps to resolve complex regulatory mechanisms.
License: GPL-3
Encoding: UTF-8
LazyData: false
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.1
VignetteBuilder: knitr
Depends: R (>= 4.1)
Imports: 
    dplyr, 
    ggplot2, 
    igraph, 
    magrittr, 
    minet, 
    purrr, 
    tibble, 
    tidyr, 
    AnnotationDbi, 
    GO.db, 
    gprofiler2,
    methods,
    Matrix,
    stats
Suggests: 
    mixOmics,
    timeOmics,
    tidyverse,
    BiocStyle,
    testthat,
    covr,
    rmarkdown,
    knitr
biocViews: GraphAndNetwork, Software, TimeCourse, WorkflowStep, SystemsBiology, NetworkInference, Network
URL: https://github.com/abodein/netOmics
BugReports: https://github.com/abodein/netOmics/issues
PackageStatus: Deprecated