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 et al. (2020) <doi:10.1101/2020.11.09.373613>.

Version: 1.2.1
Depends: R (≥ 4.0.0), methods
Imports: GenomeInfoDb, GenomicRanges, IRanges, Matrix, Rsamtools, S4Vectors, Seurat (≥ 4.0.0), SeuratObject (≥ 4.0.0), data.table, dplyr (≥ 1.0.0), future, future.apply, ggplot2, ggseqlogo, irlba, pbapply, tidyr, patchwork, stats, utils, BiocGenerics, ggrepel, stringi, fastmatch, lsa, RcppRoll, scales, Rcpp, ggforce, qlcMatrix, grid
LinkingTo: Rcpp
Suggests: testthat (≥ 2.1.0), chromVAR, SummarizedExperiment, TFBSTools, motifmatchr, BSgenome, shiny, miniUI, rtracklayer, biovizBase, Biostrings
Published: 2021-05-11
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
Citation: Signac citation info
Materials: README NEWS
CRAN checks: Signac results

Downloads:

Reference manual: Signac.pdf
Package source: Signac_1.2.1.tar.gz
Windows binaries: r-devel: Signac_1.2.0.zip, r-release: Signac_1.2.0.zip, r-oldrel: Signac_1.0.0.zip
macOS binaries: r-release: Signac_1.2.0.tgz, r-oldrel: not available
Old sources: Signac archive

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