Package: NetSAM
Type: Package
Title: Network Seriation And Modularization
Version: 1.53.0
Date: 2023-03-23
Author: Jing Wang <jing.wang@bcm.edu>
Maintainer: Zhiao Shi <zhiao.shi@gmail.com>
Description: The NetSAM (Network Seriation and Modularization) package
        takes an edge-list representation of a weighted or unweighted
        network as an input, performs network seriation and
        modularization analysis, and generates as files that can be
        used as an input for the one-dimensional network visualization
        tool NetGestalt (http://www.netgestalt.org) or other network
        analysis. The NetSAM package can also generate correlation
        network (e.g. co-expression network) based on the input matrix
        data, perform seriation and modularization analysis for the
        correlation network and calculate the associations between the
        sample features and modules or identify the associated GO terms
        for the modules.
License: LGPL
LazyLoad: yes
Depends: R (>= 3.0.0), seriation (>= 1.0-6), igraph (>= 2.0.0), tools
        (>= 3.0.0), WGCNA (>= 1.34.0), biomaRt (>= 2.18.0)
Imports: methods, AnnotationDbi (>= 1.28.0), doParallel (>= 1.0.10),
        foreach (>= 1.4.0), survival (>= 2.37-7), GO.db (>= 2.10.0),
        R2HTML (>= 2.2.0), DBI (>= 0.5-1)
Suggests: RUnit, BiocGenerics, org.Sc.sgd.db, org.Hs.eg.db,
        org.Mm.eg.db, org.Rn.eg.db, org.Dr.eg.db, org.Ce.eg.db,
        org.Cf.eg.db, org.Dm.eg.db, org.At.tair.db, rmarkdown, knitr,
        markdown
Collate: zzz.R NetSAM.R NetAnalyzer.R MatNet.R MatSAM.R consensusNet.R
        mapToSymbol.R testFileFormat.R featureAssociation.R
        GOAssociation.R mergeDuplicate.R
NeedsCompilation: no
VignetteBuilder: knitr
Packaged: 2026-07-04 23:20:52 UTC; root
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:37:49 UTC
RemoteUrl: https://github.com/bioc/NetSAM
RemoteRef: HEAD
RemoteSha: d17545804d4e92f96f7678899d630788fc1380da