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. (2021) <doi:10.1038/s41592-021-01282-5>.

Version: 1.13.0
Depends: R (≥ 4.0.0), methods
Imports: GenomeInfoDb (≥ 1.29.3), GenomicRanges, IRanges, Matrix, Rsamtools, S4Vectors, SeuratObject (≥ 4.0.0), data.table, dplyr (≥ 1.0.0), future, future.apply, ggplot2, rlang, irlba, pbapply, tidyr, patchwork, stats, utils, BiocGenerics, stringi, fastmatch, RcppRoll, scales, Rcpp, grid, tidyselect, vctrs, lifecycle
LinkingTo: Rcpp
Suggests: Seurat (≥ 4.0.6), ggforce, ggrepel, ggseqlogo, testthat (≥ 2.1.0), chromVAR, SummarizedExperiment, TFBSTools, motifmatchr, BSgenome, shiny, miniUI, rtracklayer, biovizBase, Biostrings, lsa, MASS
Published: 2024-04-04
DOI: 10.32614/CRAN.package.Signac
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 <stuartt at>
License: MIT + file LICENSE
NeedsCompilation: yes
Citation: Signac citation info
Materials: README NEWS
In views: Omics
CRAN checks: Signac results


Reference manual: Signac.pdf


Package source: Signac_1.13.0.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): Signac_1.13.0.tgz, r-oldrel (arm64): Signac_1.13.0.tgz, r-release (x86_64): Signac_1.13.0.tgz, r-oldrel (x86_64): Signac_1.13.0.tgz
Old sources: Signac archive

Reverse dependencies:

Reverse imports: MOSim
Reverse suggests: AnanseSeurat, ChromSCape, HCATonsilData


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