DESCRIPTION

Package: memes
Type: Package
Title: motif matching, comparison, and de novo discovery using the MEME Suite
Version: 1.13.1
Authors@R: person("Spencer", "Nystrom",
    email = "nystromdev@gmail.com", 
    role = c("aut", "cre", "cph"),
    comment = c(ORCID = "0000-0003-1000-1579"))
Description: A seamless interface to the MEME Suite family of tools for motif
    analysis. 'memes' provides data aware utilities for using GRanges objects as
    entrypoints to motif analysis, data structures for examining & editing motif
    lists, and novel data visualizations. 'memes' functions and data structures are
    amenable to both base R and tidyverse workflows.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports:
    Biostrings,
    dplyr,
    cmdfun (>= 1.0.2),
    GenomicRanges,
    ggplot2,
    ggseqlogo,
    magrittr,
    matrixStats,
    methods,
    patchwork,
    processx,
    purrr,
    rlang,
    readr,
    stats,
    tools,
    tibble,
    tidyr,
    utils,
    usethis,
    universalmotif (>= 1.9.3),
    xml2
Suggests:
    cowplot,
    BSgenome.Dmelanogaster.UCSC.dm3,
    BSgenome.Dmelanogaster.UCSC.dm6,
    forcats,
    testthat (>= 2.1.0),
    knitr,
    MotifDb,
    pheatmap,
    PMCMRplus,
    plyranges (>= 1.9.1),
    rmarkdown,
    covr
biocViews: DataImport, FunctionalGenomics, GeneRegulation, MotifAnnotation, MotifDiscovery, SequenceMatching, Software
RoxygenNote: 7.1.1
SystemRequirements: Meme Suite (v5.3.3 or above) <http://meme-suite.org/doc/download.html>
VignetteBuilder: knitr
URL: https://snystrom.github.io/memes/, https://github.com/snystrom/memes
BugReports: https://github.com/snystrom/memes/issues
Depends: 
    R (>= 4.1)
Config/testthat/edition: 3