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simPIC: flexible simulation of paired-insertion counts for single-cell ATAC-sequencing data

Bioconductor version: Release (3.19)

simPIC is a package for simulating single-cell ATAC-seq count data. It provides a user-friendly, well documented interface for data simulation. Functions are provided for parameter estimation, realistic scATAC-seq data simulation, and comparing real and simulated datasets.

Author: Sagrika Chugh [aut, cre] , Davis McCarthy [aut], Heejung Shim [aut]

Maintainer: Sagrika Chugh <sagrika.chugh at>

Citation (from within R, enter citation("simPIC")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

simPIC: simulating single-cell ATAC-seq data HTML R Script
Reference Manual PDF


biocViews ATACSeq, DataImport, ImmunoOncology, Sequencing, SingleCell, Software
Version 1.0.0
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License GPL-3
Depends R (>= 4.4.0), SingleCellExperiment
Imports BiocGenerics, checkmate (>= 2.0.0), fitdistrplus, matrixStats, Matrix, stats, SummarizedExperiment, actuar, rlang, S4Vectors, methods, scales, scuttle
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Suggests ggplot2 (>= 3.4.0), knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0)
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Follow Installation instructions to use this package in your R session.

Source Package simPIC_1.0.0.tar.gz
Windows Binary
macOS Binary (x86_64) simPIC_1.0.0.tgz
macOS Binary (arm64) simPIC_1.0.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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