Package: corral
Title: Correspondence Analysis for Single Cell Data
Version: 1.0.0
Date: 2020-10-26
Authors@R: 
    c(person(given = "Lauren", family = "Hsu",
             role = c("aut", "cre"),
             email = "lrnshoe@gmail.com",
             comment = c(ORCID = "0000-0002-6035-7381")),
     person(given = "Aedin", family = "Culhane",
             role = c("aut"),
             email = "aedin@jimmy.harvard.edu",
             comment = c(ORCID = "0000-0002-1395-9734")))
Description: 
    Correspondence analysis (CA) is a matrix factorization method, and is 
    similar to principal components analysis (PCA). Whereas PCA is designed for 
    application to continuous, approximately normally distributed data, CA is 
    appropriate for non-negative, count-based data that are in the same additive scale. 
    The corral package implements CA for dimensionality reduction of a single matrix of 
    single-cell data, as well as a multi-table adaptation of CA that leverages 
    data-optimized scaling to align data generated from different sequencing platforms 
    by projecting into a shared latent space. corral utilizes sparse matrices and a 
    fast implementation of SVD, and can be called directly on Bioconductor objects 
    (e.g., SingleCellExperiment) for easy pipeline integration.
    The package also includes the option to apply CA-style processing to 
    continuous data (e.g., proteomic TOF intensities) with the Hellinger distance
    adaptation of CA.
Imports: ggplot2, ggthemes, grDevices, gridExtra, irlba, Matrix,
        methods, MultiAssayExperiment, pals, SingleCellExperiment,
        SummarizedExperiment, transport
Suggests: ade4, BiocStyle, CellBench, DuoClustering2018, knitr,
        testthat
License: GPL-2
RoxygenNote: 7.1.1
VignetteBuilder: knitr
biocViews: BatchEffect, DimensionReduction, Preprocessing,
        PrincipalComponent, Sequencing, SingleCell, Software,
        Visualization
Encoding: UTF-8
git_url: https://git.bioconductor.org/packages/corral
git_branch: RELEASE_3_12
git_last_commit: 806b978
git_last_commit_date: 2020-10-27
Date/Publication: 2020-10-27
NeedsCompilation: no
Packaged: 2020-10-27 23:30:35 UTC; biocbuild
Author: Lauren Hsu [aut, cre] (<https://orcid.org/0000-0002-6035-7381>),
  Aedin Culhane [aut] (<https://orcid.org/0000-0002-1395-9734>)
Maintainer: Lauren Hsu <lrnshoe@gmail.com>
Built: R 4.0.3; ; 2021-03-30 07:53:25 UTC; unix
