R Observatory: Metrics for scShardSplitRef version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

scShardSplitRef

0.1.0Package record

Build Custom Reference Genome for Single-Cell Multiome ATAC and Gene Expression Data of Large-Genome Species

0packages depend

677downloads / year

64.9%test coverage

13/13flavors OK

Overview

About

Maintained by Irina KuznetsovaCRAN page ↗Declared funders: Curtin University and Grains Research and Development Corporation

Provides utilities that enable researchers to build custom references for the Multiome ATAC Gene Expression sequencing data for large-genome species without manual intervention.

Changes in 0.1.0

Initial CRAN submission.

``

From NEWS.md in the release

Install

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

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

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

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-scshardsplitref

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-scShardSplitRef

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-scShardSplitRef

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: 3.6 min · r-release-macos-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK7 OK2026-07-24

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMEYes · 904 wordsVignettesYes · 2 · dynamicNEWSYes · 67% structured · mentions 0.1.0Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 4 (1 internal)includes a package overview page
Examples that run: 100%3 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (2)

How these are measured

Downloads

677

CRAN downloads in the past year

Rank #19,250 · ~2/day · ~56/mo

Releases R versions

Daily download trend is not available in this view yet.

23330 days

67790 days

6771 year

Compare downloads with other packages →

Also on18 r2u4 autocran

How downloads are counted

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Installing scShardSplitRef adds 4 packages (3 with compiled code, 12 MB of source tarballs). Heaviest: stringi 11 MB, rlang 766 KB, cli 629 KB.

Depends (1)

R >= 4.3.0

Imports (5)

cli rlang stringiutilswithr

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown roxyglobals 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 (6)

Irina Kuznetsova

Author, Maintainer since 0.1.0 (2026)

Author

Author

Author

Funder, Copyright holder

Grains Research and Development Corporation

Funder, Copyright holder

GRDC Project CUR2210-005OPX (AAGI-CU)

Releases (1)

0.1.0Latest
record
2026-07-23 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-07-23
Total releases: 1 / 1 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.3.0
Download size: 3.8 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("scShardSplitRef")

Format

Kuznetsova, I., Curtin University, Grains Research and Development Corporation, Curci, L., Pembleton, L., & Sparks, A. H. (2026). scShardSplitRef: Build Custom Reference Genome for Single-Cell Multiome ATAC and Gene Expression Data of Large-Genome Species (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.scShardSplitRef

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 scShardSplitRef version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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