Package: ccfindR
Version: 1.33.0
Date: 2019-10-1
Title: Cancer Clone Finder
Authors@R: c(person('Jun','Woo',role=c('aut','cre'),email='jwoo@umn.edu'),
             person('Jinhua','Wang',role='aut',email='wangjh@umn.edu'))
Depends: R (>= 3.6.0)
Imports: stats, S4Vectors, utils, methods, Matrix,
        SummarizedExperiment, SingleCellExperiment, Rtsne, graphics,
        grDevices, gtools, RColorBrewer, ape, Rmpi, irlba, Rcpp, Rdpack
        (>= 0.7)
RdMacros: Rdpack
biocViews: Transcriptomics, SingleCell, ImmunoOncology, Bayesian,
        Clustering
Description: A collection of tools for cancer genomic data clustering
        analyses, including those for single cell RNA-seq. Cell
        clustering and feature gene selection analysis employ Bayesian
        (and maximum likelihood) non-negative matrix factorization
        (NMF) algorithm. Input data set consists of RNA count matrix,
        gene, and cell bar code annotations.  Analysis outputs are
        factor matrices for multiple ranks and marginal likelihood
        values for each rank. The package includes utilities for
        downstream analyses, including meta-gene identification,
        visualization, and construction of rank-based trees for
        clusters.
License: GPL (>= 2)
NeedsCompilation: yes
URL: http://dx.doi.org/10.26508/lsa.201900443
RoxygenNote: 6.1.1
Encoding: UTF-8
Suggests: BiocStyle, knitr, rmarkdown
VignetteBuilder: knitr
LinkingTo: Rcpp, RcppEigen
Author: Jun Woo [aut, cre], Jinhua Wang [aut]
Maintainer: Jun Woo <jwoo@umn.edu>
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:47:53 UTC
RemoteUrl: https://github.com/bioc/ccfindR
RemoteRef: HEAD
RemoteSha: 71cf4a4452a3cc9d7eefaaa8d6999a317ac49471
Packaged: 2026-06-23 20:24:25 UTC; root