R Observatory: Metrics for scperturbR version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

scperturbR

0.1.0Package record

E-Statistics for Seurat Objects

0packages depend

2.3Kdownloads / year

68.7%test coverage

11/13flavors OK

Overview

About

Maintained by Stefan PeidliCRAN page ↗GitHub ↗Issues ↗

R version of 'scperturb' tool for single-cell perturbation analysis. Contains wrappers for performing E-statistics for Seurat objects. More details on the method can be found in Peidli et al. (2023) doi:10.1101/2022.08.20.504663 and in Székely and Rizzo (2004).

Changes in 0.1.0

Added a NEWS.md file to track changes to the package.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("scperturbR", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("sanderlab/scPerturb")

Development version from sanderlab/scPerturb. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-scperturbr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-scperturbR

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-scperturbR

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Stefan Peidli <stefanpeidli@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Stefan",
                    family = "Peidli",
                    role = c("aut", "cre"),
                    email = "stefanpeidli@gmail.com")
as necessary.

CRAN check page ↗

Slowest check: 5.2 min · r-oldrel-macos-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-06-09
ERROR11 OK, 1 NOTE, 1 ERROR2026-06-08
NOTE12 OK, 2 NOTE2026-04-10
ERROR12 OK, 1 NOTE, 1 ERROR2026-04-09
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMENoVignettesNoNEWSYes · 67% structured · mentions 0.1.0Citation fileNo

Help pages: 2
Examples that run: 0%2 hold no code
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

2.3K

CRAN downloads in the past year

Rank #21,153 · ~6/day · ~189/mo

Releases R versions

Daily download trend is not available in this view yet.

23230 days

62690 days

2.3K1 year

Compare downloads with other packages →

Also on70 r2u2 autocran

How downloads are counted

Repository

sanderlab/scperturb ↗Organization: sanderlab

192Stars

13Forks

13Open issues

0Open PRs

5Releases

163Commits

9Commit identities

cite-seqdatabaseperturbationscatac-seqsciencescrna-seqsingle-cellpython

163 commits · Last activity 2025-02-25 · +2.1% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 6
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2026-07-14 · 1822026-10-21 · 192

How these are measured

PracticesBeta

4 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/sanderlab/scperturb on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (2)

GitHub Pages site last deployed 2025-02-25 · The repository has a site deploy workflow

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing scperturbR adds 138 packages (84 with compiled code, 127 MB of source tarballs). Heaviest: BH 14 MB, stringi 11 MB, ggplot2 6.0 MB.

Depends (1)

R >= 3.5.0

Imports (5)

Seurat dplyr rdist energystats

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (from the free-text Author field) (1)

Stefan Peidli

Maintainer since 0.1.0 (2023)

Releases (1)

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.1.0Latest
record
2023-03-01 · current release
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2023-03-01
Total releases: 1 / 3 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Download size: 3.8 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("scperturbR")

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for scperturbR version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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