Package: Linnorm
Type: Package
Title: Linear model and normality based normalization and
        transformation method (Linnorm)
Version: 2.24.1
Date: 2021-08-15
Author: Shun Hang Yip <shunyip@bu.edu>, Panwen Wang <pwwang@pwwang.com>,
    Jean-Pierre Kocher <Kocher.JeanPierre@mayo.edu>, Pak Chung Sham <pcsham@hku.hk>,
    Junwen Wang <junwen@uw.edu>
Maintainer: Ken Shun Hang Yip <shunyip@bu.edu>
Description: Linnorm is an algorithm for normalizing and transforming RNA-seq, single cell RNA-seq, ChIP-seq count data or any large scale count data. It has been independently reviewed by Tian et al. on Nature Methods (https://doi.org/10.1038/s41592-019-0425-8). 
    Linnorm can work with raw count, CPM, RPKM, FPKM and TPM.
Depends: R(>= 4.1.0)
License: MIT + file LICENSE
Imports: Rcpp (>= 0.12.2), RcppArmadillo (>= 0.8.100.1.0), fpc, vegan,
        mclust, apcluster, ggplot2, ellipse, limma, utils, statmod,
        MASS, igraph, grDevices, graphics, fastcluster, ggdendro, zoo,
        stats, amap, Rtsne, gmodels
LinkingTo: Rcpp, RcppArmadillo
Suggests: BiocStyle, knitr, rmarkdown, markdown, gplots, RColorBrewer,
        moments, testthat
VignetteBuilder: knitr
biocViews: ImmunoOncology, Sequencing, ChIPSeq, RNASeq,
        DifferentialExpression, GeneExpression, Genetics,
        Normalization, Software, Transcription, BatchEffect,
        PeakDetection, Clustering, Network, SingleCell
NeedsCompilation: yes
LazyData: false
URL: https://doi.org/10.1093/nar/gkx828
RoxygenNote: 6.0.1
git_url: https://git.bioconductor.org/packages/Linnorm
git_branch: RELEASE_3_17
git_last_commit: 2ddb935
git_last_commit_date: 2023-05-01
Date/Publication: 2023-05-02
Packaged: 2023-05-02 21:12:58 UTC; biocbuild
