Package: SmCCNet 2.0.7

Abhinav Pundir

SmCCNet: Sparse Multiple Canonical Correlation Network Analysis Tool ('SmCCNet')

A canonical correlation based framework ('SmCCNet') designed for the construction of phenotype-specific multi-omics networks. This framework adeptly integrates single or multiple omics data types along with a quantitative or binary phenotype of interest. It offers a streamlined setup process that can be tailored manually or configured automatically, ensuring a flexible and user-friendly experience. Methods are described in Shi et al. (2019) "Unsupervised discovery of phenotype-specific multi-omics networks" <doi:10.1093/bioinformatics/btz226>.

Authors:Abhinav Pundir [cre], Weixuan Liu [aut], Yonghua Zhuang [aut], W. Jenny Shi [aut], Thao Vu [aut], Iain Konigsberg [aut], Katherine Pratte [aut], Laura Saba [aut], Katerina Kechris [aut]

SmCCNet_2.0.7.tar.gz
SmCCNet_2.0.7.zip(r-4.7)SmCCNet_2.0.7.zip(r-4.6)SmCCNet_2.0.7.zip(r-4.5)
SmCCNet_2.0.7.tgz(r-4.6-any)SmCCNet_2.0.7.tgz(r-4.5-any)
SmCCNet_2.0.7.tar.gz(r-4.7-any)SmCCNet_2.0.7.tar.gz(r-4.6-any)
SmCCNet_2.0.7.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SmCCNet/json (API)
NEWS

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

Bug tracker:https://github.com/kechrislab/smccnet/issues

Pkgdown/docs site:https://kechrislab.github.io

Datasets:
  • X1 - A synthetic mRNA expression dataset.
  • X2 - A synthetic miRNA expression dataset.
  • Y - A synthetic phenotype dataset.

On CRAN:

Conda:

network

6.65 score 32 stars 31 scripts 476 downloads 1 mentions 16 exports 45 dependencies

Last updated from:b863af0209. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK163
source / vignettesOK245
linux-release-x86_64OK158
macos-release-arm64OK166
macos-oldrel-arm64OK150
windows-develOK86
windows-releaseOK94
windows-oldrelOK91
wasm-releaseOK147

Exports:%>%aggregateCVSingleclassifierEvaldataPreprocessfastAutoSmCCNetgetAbargetCanCorMultigetCanWeightsMultigetOmicsModulesgetRobustWeightsMultigetRobustWeightsMultiBinarygetRobustWeightsSinglegetRobustWeightsSingleBinarynetworkPruningscalingFactorInputsummarizeNetSHy

Dependencies:clicodetoolscpp11data.tabledigestEnvStatsfarverfurrrfutureggplot2globalsgluegtableigraphisobandjsonlitelabelinglatticelifecyclelistenvmagrittrMASSMatrixnnetnortestparallellypbapplypkgconfigplspracmapROCpurrrR6RColorBrewerRcpprlangrlistS7scalessplsvctrsviridisLitewithrXMLyaml

Automated SmCCNet

Weixuan Liu, Katerina Kechris

Rendered fromSmCCNet_Vignette_AutoSmCCNet.Rmdusingknitr::rmarkdownon Jun 15 2026.

Last update: 2026-05-08
Started: 2023-10-03

Reconstructing Phenotype-Specific Multi-Omics Networks with SmCCNet

Weixuan Liu, Yonghua Zhuang, W. Jenny Shi, Katerina Kechris

Rendered fromSmCCNet_Vignette_MultiOmics.Rmdusingknitr::rmarkdownon Jun 15 2026.

Last update: 2026-05-08
Started: 2023-10-03

Reconstructing Phenotype-Specific Single-Omics Networks with SmCCNet

Weixuan Liu, Katerina Kechris

Rendered fromSmCCNet_Vignette_SingleOmics.Rmdusingknitr::rmarkdownon Jun 15 2026.

Last update: 2026-05-08
Started: 2023-10-03