Package: Signac
Title: Analysis of Single-Cell Chromatin Data
Version: 1.1.1
Date: 2021-02-01
Authors@R: c(
  person(given = 'Tim', family = 'Stuart', email = 'tstuart@nygenome.org', role = c('aut', 'cre'), comment = c(ORCID = '0000-0002-3044-0897')),
  person(given = 'Avi', family = 'Srivastava', email = 'asrivastava@nygenome.org', role = 'aut', comment = c(ORCID = '0000-0001-9798-2079')),
  person(given = 'Paul', family = 'Hoffman', email = 'phoffman@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0002-7693-8957')),
  person(given = 'Rahul', family = 'Satija', email = 'rsatija@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0001-9448-8833'))
  )
Description: A framework for the analysis and exploration of single-cell chromatin data.
    The 'Signac' package contains functions for quantifying single-cell chromatin data,
    computing per-cell quality control metrics, dimension reduction
    and normalization, visualization, and DNA sequence motif analysis.
    Reference: Stuart et al. (2020) <doi:10.1101/2020.11.09.373613>.
Depends: R (>= 3.6.0), methods
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
URL: https://github.com/timoast/signac, https://satijalab.org/signac
BugReports: https://github.com/timoast/signac/issues
LinkingTo: Rcpp
Imports: GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools,
        S4Vectors, Seurat (>= 3.2.0), SeuratObject, data.table, dplyr
        (>= 1.0.0), future, future.apply, ggplot2, ggseqlogo, irlba,
        pbapply, tidyr, patchwork, stats, utils, BiocGenerics,
        Biostrings, ggrepel, stringi, ggbio, biovizBase,
        AnnotationFilter, fastmatch, lsa, RcppRoll, scales, Rcpp,
        ggforce
Collate: 'RcppExports.R' 'data.R' 'generics.R' 'dimension_reduction.R'
        'footprinting.R' 'fragments.R' 'genomeinfodb-methods.R'
        'granges-methods.R' 'iranges-methods.R' 'links.R' 'mito.R'
        'motifs.R' 'objects.R' 'peaks.R' 'preprocessing.R'
        'quantification.R' 'utilities.R' 'visualization.R'
Suggests: testthat (>= 2.1.0), chromVAR, SummarizedExperiment,
        TFBSTools, motifmatchr, BSgenome, shiny, miniUI
NeedsCompilation: yes
Packaged: 2021-02-03 20:17:00 UTC; stuartt
Author: Tim Stuart [aut, cre] (<https://orcid.org/0000-0002-3044-0897>),
  Avi Srivastava [aut] (<https://orcid.org/0000-0001-9798-2079>),
  Paul Hoffman [ctb] (<https://orcid.org/0000-0002-7693-8957>),
  Rahul Satija [ctb] (<https://orcid.org/0000-0001-9448-8833>)
Maintainer: Tim Stuart <tstuart@nygenome.org>
Repository: CRAN
Date/Publication: 2021-02-03 23:50:09 UTC
Built: R 4.0.3; x86_64-conda-linux-gnu; 2021-02-04 03:41:30 UTC; unix
