Package: martini 1.33.0

Hector Climente-Gonzalez

martini: GWAS Incorporating Networks

martini deals with the low power inherent to GWAS studies by using prior knowledge represented as a network. SNPs are the vertices of the network, and the edges represent biological relationships between them (genomic adjacency, belonging to the same gene, physical interaction between protein products). The network is scanned using SConES, which looks for groups of SNPs maximally associated with the phenotype, that form a close subnetwork.

Authors:Hector Climente-Gonzalez [aut, cre], Chloe-Agathe Azencott [aut]

martini_1.33.0.tar.gz
martini_1.33.0.zip(r-4.7)martini_1.33.0.zip(r-4.6)martini_1.33.0.zip(r-4.5)
martini_1.33.0.tgz(r-4.6-x86_64)martini_1.33.0.tgz(r-4.6-arm64)martini_1.33.0.tgz(r-4.5-x86_64)martini_1.33.0.tgz(r-4.5-arm64)
martini_1.33.0.tar.gz(r-4.7-arm64)martini_1.33.0.tar.gz(r-4.7-x86_64)martini_1.33.0.tar.gz(r-4.6-arm64)martini_1.33.0.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
card.svg |card.png
martini/json (API)

# Install 'martini' in R:
install.packages('martini', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/hclimente/martini/issues

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:

On BioConductor:martini-1.33.0(bioc 3.24)martini-1.32.0(bioc 3.23)

softwaregenomewideassociationsnpgeneticvariabilitygeneticsfeatureextractiongraphandnetworknetworkbioinformaticsgenomicsgwasnetwork-analysissnpssystems-biologycpp

6.06 score 4 stars 36 scripts 420 downloads 16 exports 20 dependencies

Last updated from:f8b9bd1355. Checks:1 WARNING, 11 ERROR, 1 OK, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING175
linux-devel-arm64ERROR252
linux-devel-x86_64ERROR311
source / vignettesOK209
linux-release-arm64ERROR388
linux-release-x86_64ERROR294
macos-release-arm64ERROR185
macos-release-x86_64ERROR313
macos-oldrel-arm64ERROR218
macos-oldrel-x86_64ERROR367
windows-develERROR589
windows-releaseERROR245
windows-oldrelERROR583
wasm-releaseFAIL152

Exports:get_GI_networkget_GM_networkget_GS_networkldweight_edgesplot_ideogramsconesscones_scones.cvscones.cv_search_conessigmodsigmod_sigmod.cvsigmod.cv_simulate_causal_snpssimulate_phenotype

Dependencies:BiocGenericscachemclicpp11fastmapgenericsglueigraphlatticelifecyclemagrittrMatrixmemoisepkgconfigRcppRcppEigenrlangsnpStatssurvivalvctrs

Running SConES

Héctor Climente-González

Rendered fromscones_usage.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2021-03-02
Started: 2017-07-13

Simulating SConES-based phenotypes

Héctor Climente-González

Rendered fromsimulate_phenotype.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2021-03-02
Started: 2017-07-13