CRAN/E | Signac

Signac

Analysis of Single-Cell Chromatin Data

Installation

About

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.

Citation Signac citation info
github.com/stuart-lab/signac
stuartlab.org/signac
Bug report File report

Key Metrics

Version 1.12.0
R ≥ 4.0.0
Published 2023-11-08 22 days ago
Needs compilation? yes
License MIT
License File
CRAN checks Signac results

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Maintainer

Maintainer

Tim Stuart

stuartt@gis.a-star.edu.sg

Authors

Tim Stuart

aut / cre

Avi Srivastava

aut

Paul Hoffman

ctb

Rahul Satija

ctb

Material

README
NEWS
Reference manual
Package source

In Views

Omics

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

Signac archive

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

Suggests

Seurat ≥ 4.0.6
ggforce
ggrepel
ggseqlogo
testthat ≥2.1.0
chromVAR
SummarizedExperiment
TFBSTools
motifmatchr
BSgenome
shiny
miniUI
rtracklayer
biovizBase
Biostrings
lsa
qlcMatrix
MASS

LinkingTo

Rcpp

Reverse Suggests

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