R Observatory: Metrics for mascarade version 0.4.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

mascarade

0.4.3Package record

Generating Cluster Masks for Single-Cell Dimensional Reduction Plots

1packages depend

6.1Kdownloads / year

92.3%test coverage

13/13flavors OK

Overview

About

Maintained by Alexey SergushichevCRAN page ↗GitHub ↗Website ↗Issues ↗

Implements a procedure to automatically generate 2D masks for clusters on dimensional reduction plots from methods like t-SNE (t-distributed stochastic neighbor embedding) or UMAP (uniform manifold approximation and projection), with a focus on single-cell RNA-sequencing data.

Install

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

install.packages("mascarade", 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("alserglab/mascarade")

Development version from alserglab/mascarade. 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-mascarade

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-mascarade

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-mascarade

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

13OK

CRAN check page ↗

Slowest check: 10.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE11 OK, 2 NOTE2026-08-01
ERROR10 OK, 3 ERROR2026-07-09
OK14 OK2026-04-10
ERROR13 OK, 1 ERROR2026-04-09

Show 5 earlier changesHide 5 earlier changes

OK14 OK2026-03-28
ERROR12 OK, 2 ERROR2026-03-25
OK14 OK2026-03-24
ERROR12 OK, 2 ERROR2026-03-22
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.4.3

README· In the repository, left out of the releaseVignettesYes · 2 · dynamicNEWSYes · 100% structured · does not mention 0.4.3Citation fileNoWebsiteYes · pkgdown

Help pages: 17 (11 internal)
Examples that run: 100%4 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (2)

Gallery of mascarade-generaded masks HTML
Using mascarade package HTML

How these are measured

Downloads

6.1K

CRAN downloads in the past year

Rank #5,725 · ~17/day · ~505/mo

Releases R versions

Daily download trend is not available in this view yet.

39830 days

1.5K90 days

6.1K1 year

Compare downloads with other packages →

Also on153 r2u6 autocran

How downloads are counted

Repository

alserglab/mascarade ↗Organization: alserglab

46Stars

1Forks

1Open issues

0Open PRs

9Releases

70Commits

1Commit identities

70 commits · Last activity 2026-09-11 · 0% stars, 30d · Default branch at 0.4.3.9000, ahead of CRAN 0.4.3 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 80%
Median days to close, 50 most recently updated closed issues: 30
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-10-21 · 332026-07-23 · 46

How these are measured

PracticesBeta

7 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/alserglab/mascarade on 2026-10-21.

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 (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-09-11 · The repository has a site deploy workflow

pkgdown site last built 2026-09-11

Reproducibility and dev environment (1)

data-raw/

How this is detected·Detection ruleset v4 (2026-10-20)

AI coding toolsBeta

This repository shows signs of AI coding tools.

Claude Codefirst seen 2026-07-21
Commits: at least 4 crediting it in the message

Models named in its commits

Claude Opus 4.84 commits · Jul 2026

Counts are commits, not lines of code. Commits by a tool's accounts count once across all of its accounts. Commits crediting it are the largest count among its credit lines, a minimum.How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

24 external dependencies (excludes base and recommended)

Installing mascarade adds 40 packages (26 with compiled code, 44 MB of source tarballs). Heaviest: BH 14 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5

Imports (13)

data.table spatstat.geom spatstat.explore lifecycle ggplot2 polyclip polylabelr ggforce vctrs rlang cli systemfonts Rcpp

LinkingTo (2)

Rcpp BH

Suggests (9)

testthat rmarkdown knitr patchwork Seurat scales SeuratObject svglite colorrepel

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

colorrepel

How these are counted

Code & Tests

Datasets

People & History

People (1)

Alexey Sergushichev

Author, Maintainer since 0.3.0 (2026)

Releases (9)

Pick two releases to compare their code metrics.

0.4.3Latest
record
2026-07-30 · current release · diff ↗
0.4.2
record
2026-07-24 · diff ↗
0.4.1
record
2026-07-21 · diff ↗
0.3.5
record
2026-07-08 · diff ↗
R
R 4.6.0 released · 2026-04-24
0.3.4
record
2026-04-14 · diff ↗
0.3.3
record
2026-03-24 · diff ↗
0.3.2
record
2026-03-06 · diff ↗
0.3.1
record
2026-02-14 · diff ↗
0.3.0
record
2026-01-12
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-01-12
Total releases: 9 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5
Bundled data: 121 KB / 2 files
Download size: 1.8 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("mascarade")

Format

Sergushichev, A. (2026). mascarade: Generating Cluster Masks for Single-Cell Dimensional Reduction Plots (Version 0.4.3) [Computer software]. https://doi.org/10.32614/CRAN.package.mascarade

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 mascarade version 0.4.3 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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