Package: SmCCNet 2.0.3

Weixuan Liu

SmCCNet: Sparse Multiple Canonical Correlation Network Analysis Tool

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.

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

SmCCNet_2.0.3.tar.gz
SmCCNet_2.0.3.zip(r-4.5)SmCCNet_2.0.3.zip(r-4.4)SmCCNet_2.0.3.zip(r-4.3)
SmCCNet_2.0.3.tgz(r-4.4-any)SmCCNet_2.0.3.tgz(r-4.3-any)
SmCCNet_2.0.3.tar.gz(r-4.5-noble)SmCCNet_2.0.3.tar.gz(r-4.4-noble)
SmCCNet_2.0.3.tgz(r-4.4-emscripten)SmCCNet_2.0.3.tgz(r-4.3-emscripten)
SmCCNet.pdf |SmCCNet.html✨
SmCCNet/json (API)
NEWS

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

Peer review:

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

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

On CRAN:

network

16 exports 25 stars 2.54 score 53 dependencies 1 mentions 25 scripts 229 downloads

Last updated 5 months agofrom:532ae67e2e. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 12 2024
R-4.5-winOKSep 12 2024
R-4.5-linuxOKSep 12 2024
R-4.4-winOKSep 12 2024
R-4.4-macOKSep 12 2024
R-4.3-winOKSep 12 2024
R-4.3-macOKSep 12 2024

Exports:%>%aggregateCVSingleclassifierEvaldataPreprocessfastAutoSmCCNetgetAbargetCanCorMultigetCanWeightsMultigetOmicsModulesgetRobustWeightsMultigetRobustWeightsMultiBinarygetRobustWeightsSinglegetRobustWeightsSingleBinarynetworkPruningscalingFactorInputsummarizeNetSHy

Dependencies:clicodetoolscolorspacecpp11data.tabledigestEnvStatsfansifarverfurrrfutureggplot2globalsgluegtableigraphisobandjsonlitelabelinglatticelifecyclelistenvmagrittrMASSMatrixmgcvmunsellnlmennetnortestparallellypbapplypillarpkgconfigplsplyrpracmapROCpurrrR6RColorBrewerRcpprlangrlistscalessplstibbleutf8vctrsviridisLitewithrXMLyaml

Automated SmCCNet

Weixuan Liu, Katerina Kechris

Rendered fromSmCCNet_Vignette_AutoSmCCNet.Rmdusingknitr::rmarkdownon Sep 12 2024.

Last update: 2024-01-13
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 Sep 12 2024.

Last update: 2024-04-16
Started: 2023-10-03

Reconstructing Phenotype-Specific Single-Omics Networks with SmCCNet

Weixuan Liu, Katerina Kechris

Rendered fromSmCCNet_Vignette_SingleOmics.Rmdusingknitr::rmarkdownon Sep 12 2024.

Last update: 2024-04-16
Started: 2023-10-03