DESCRIPTION

Encoding: UTF-8
Type: Package
Package: fastTopics
Version: 0.6-192
Date: 2024-07-08
Title: Fast Algorithms for Fitting Topic Models and Non-Negative
    Matrix Factorizations to Count Data
Authors@R: c(person("Peter","Carbonetto",role=c("aut","cre"),
                    email="peter.carbonetto@gmail.com"),
             person("Kevin","Luo",role="aut"),
             person("Kushal","Dey",role="aut"),
             person("Joyce","Hsiao",role="ctb"),
             person("Abhishek","Sarkar",role="ctb"),
             person("Anthony","Hung",role="ctb"),
	     person("Xihui","Lin",role="ctb"),
	     person("Paul C.","Boutros",role="ctb"),
	     person("Minzhe","Wang",role="ctb"),
	     person("Tracy","Ke",role="ctb"),
	     person("Eric","Weine",role="ctb"),
             person("Matthew","Stephens",role="aut"))
URL: https://stephenslab.github.io/fastTopics/, https://github.com/stephenslab/fastTopics
BugReports: https://github.com/stephenslab/fastTopics/issues
Depends: R (>= 3.3.0)
Description: Implements fast, scalable optimization algorithms for
    fitting topic models ("grade of membership" models) and
    non-negative matrix factorizations to count data. The methods
    exploit the special relationship between the multinomial topic
    model (also, "probabilistic latent semantic indexing") and Poisson
    non-negative matrix factorization. The package provides tools to
    compare, annotate and visualize model fits, including functions to
    efficiently create "structure plots" and identify key features in
    topics. The 'fastTopics' package is a successor to the
    'CountClust' package. For more information, see
    <doi:10.48550/arXiv.2105.13440> and
    <doi:10.1186/s13059-023-03067-9>. Please also see the GitHub
    repository for additional vignettes not included in the package on
    CRAN.
License: BSD_2_clause + file LICENSE
Copyright: inst/COPYRIGHTS
SystemRequirements: GNU make
Imports:
    graphics,
    utils,
    methods,
    stats,
    Matrix,
    gtools,
    quadprog,
    irlba,
    dplyr,
    Rtsne,
    uwot,
    ashr,
    Rcpp (>= 1.0.12),
    RcppParallel (>= 5.1.7),
    RhpcBLASctl,
    parallel,
    progress,
    pbapply,
    ggplot2 (>= 3.3.0),
    ggrepel (>= 0.9.0),
    cowplot,
    plotly,
    htmlwidgets
Suggests:
    Ternary,
    testthat,
    knitr,
    rmarkdown
LinkingTo:
    Rcpp,
    RcppParallel,
    RcppArmadillo
LazyData: true
LazyDataCompression: xz
NeedsCompilation: yes
RoxygenNote: 7.3.1
VignetteBuilder: knitr