Package: multiClust
Type: Package
Title: multiClust: An R-package for Identifying Biologically Relevant
        Clusters in Cancer Transcriptome Profiles
Version: 1.6.0
Date: 2016-06-19
Authors@R: c(
    person("Nathan","Lawlor", email = "nathan.lawlor03@gmail.com",
    role = c("aut", "cre")),
    person("Peiyong", "Guan", role = "aut"),
    person("Alec","Fabbri", email = "fabbrialhs@gmail.com", role = "aut"),
    person("Krish", "Karuturi", email = "Krishna.Karuturi@jax.org",
    role = "aut"),
    person("Joshy", "George", email = "Joshy.George@jax.org", role = "aut")
    )
Description: Clustering is carried out to identify patterns in transcriptomics
    profiles to determine clinically relevant subgroups of patients. Feature
    (gene) selection is a critical and an integral part of the process.
    Currently, there are many feature selection and clustering methods to
    identify the relevant genes and perform clustering of samples. However,
    choosing an appropriate methodology is difficult. In addition, extensive
    feature selection methods have not been supported by the available
    packages. Hence, we developed an integrative R-package called multiClust
    that allows researchers to experiment with the choice of combination of
    methods for gene selection and clustering with ease. Using multiClust,
    we identified the best performing clustering methodology in the context
    of clinical outcome. Our observations demonstrate that simple methods
    such as variance-based ranking perform well on the majority of data sets,
    provided that the appropriate number of genes is selected. However,
    different gene ranking and selection methods remain relevant as no
    methodology works for all studies.
License: GPL (>= 2)
biocViews: FeatureExtraction, Clustering, GeneExpression, Survival
LazyData: TRUE
Imports: mclust, ctc, survival, cluster, dendextend, amap, graphics,
        grDevices
Suggests: knitr, gplots, RUnit, BiocGenerics, preprocessCore, Biobase,
        GEOquery
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2017-04-25 01:14:16 UTC; biocbuild
Author: Nathan Lawlor [aut, cre],
    Peiyong Guan [aut],
    Alec Fabbri [aut],
    Krish Karuturi [aut],
    Joshy George [aut]
Maintainer: Nathan Lawlor <nathan.lawlor03@gmail.com>
Built: R 3.4.0; ; 2017-04-25 05:46:34 UTC; windows
