R Observatory: Metrics for WOTPLY version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

WOTPLY

0.1.0Package record

Plot Connectivity Between Cells from Different Time Points

0packages depend

2.3Kdownloads / year

12.1%test coverage

11/13flavors OK

Overview

About

Maintained by Gabriele LubattiCRAN page ↗

It shows the connections between selected clusters from the latest time point and the clusters from all the previous time points. The transition matrices between time point t and t+1 are obtained from Waddington-OT analysis https://github.com/ScialdoneLab/WOTPLY.

Install

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

install.packages("WOTPLY", 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-wotply

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-WOTPLY

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-WOTPLY

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

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘sna’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 56 s · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-09-08
ERROR11 OK, 1 NOTE, 1 ERROR2026-09-07
NOTE11 OK, 2 NOTE2026-06-09
ERROR10 OK, 2 NOTE, 1 ERROR2026-06-08
NOTE11 OK, 2 NOTE2026-05-12

Show 2 earlier changesHide 2 earlier changes

WARNING10 OK, 2 NOTE, 1 WARNING2026-05-11
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 4
Examples that run: 50%1 run in a plain check · 1 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 50%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

WOTPLY HTML

How these are measured

Downloads

2.3K

CRAN downloads in the past year

Rank #22,225 · ~6/day · ~188/mo

Releases R versions

Daily download trend is not available in this view yet.

21330 days

60190 days

2.3K1 year

Compare downloads with other packages →

Also on65 r2u6 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing WOTPLY adds 41 packages (18 with compiled code, 35 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, patchwork 3.2 MB.

Depends (1)

R >= 4.0

Imports (3)

network GGally sna

LinkingTo (0)

none

Suggests (2)

testthat knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Gabriele Lubatti

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
2022-09-12 · current release
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-09-12
Total releases: 1 / 4 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.0
Download size: 104 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("WOTPLY")

Format

Lubatti, G. (2022). WOTPLY: Plot Connectivity Between Cells from Different Time Points (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.WOTPLY

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 WOTPLY version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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