Signac: Analysis of Single-Cell Chromatin Data

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 and Butler et al. (2019) <doi:10.1016/j.cell.2019.05.031>.

Version: 1.1.0
Depends: R (≥ 3.6.0), methods
Imports: GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools, S4Vectors, Seurat (≥ 3.2.0), 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
LinkingTo: Rcpp
Suggests: testthat (≥ 2.1.0), chromVAR, SummarizedExperiment, TFBSTools, motifmatchr, BSgenome, shiny, miniUI
Published: 2020-11-07
Author: Tim Stuart ORCID iD [aut, cre], Avi Srivastava ORCID iD [aut], Paul Hoffman ORCID iD [ctb], Rahul Satija ORCID iD [ctb]
Maintainer: Tim Stuart <tstuart at nygenome.org>
BugReports: https://github.com/timoast/signac/issues
License: MIT + file LICENSE
URL: https://github.com/timoast/signac, https://satijalab.org/signac
NeedsCompilation: yes
Materials: README NEWS
CRAN checks: Signac results

Downloads:

Reference manual: Signac.pdf
Package source: Signac_1.1.0.tar.gz
Windows binaries: r-devel: Signac_1.1.0.zip, r-release: Signac_1.1.0.zip, r-oldrel: Signac_1.0.0.zip
macOS binaries: r-release: Signac_0.2.5.tgz, r-oldrel: not available
Old sources: Signac archive

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