R Observatory: Metrics for lisat version 0.1.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

lisat

0.1.2

Longitudinal Integration Site Analysis Toolkit

0packages depend

1.7Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Shuai NiFirst published 2026-03-271 releasesCRAN page ↗

A comprehensive toolkit for the analysis of longitudinal integration site data, including data cleaning, quality control, statistical modeling, and visualization. It streamlines the entire workflow of integration site analysis, supports simple input formats, and provides user-friendly functions for researchers in virus integration site analysis. Ni et al. (2025) doi:10.64898/2025.12.20.695672.

Install

R (CRAN)Ubuntu (r2u)

install.packages("lisat", 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-lisat

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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

Health

CRAN checks

2ERROR11OK

Failing flavors

ERROR r-oldrel-macos-arm64
ERROR r-oldrel-macos-x86_64

Slowest check: 12.8 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.07

not tracked

Coverage

100%

Documentation · exports

11

Dependencies · direct

Check history

ERROR2026-03-28
3 OK · 0 NOTE · 0 WARNING · 2 ERROR · 0 FAILURE

Documentation

READMEYes · 310 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: not tracked
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

1.7K

CRAN downloads in the past year

Rank #12,056 · ~5/day · ~138/mo

Releases R versions

Daily download trend is not available in this view yet.

15730 days

82290 days

1.7K1 year

Compare downloads with other packages →

Also on40 r2u

Dependencies

Declared dependencies

33 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5

Imports (11)

GenomicRanges IRanges tidyr (>= 1.3.0)dplyr AnnotationDbi S4Vectors GenomicFeatures magrittr ggplot2 purrr broom

LinkingTo (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Maintainer (1)

Shuai Ni

Author, Maintainer

Authors (1)

Shuai Ni

Author, Maintainer

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.2Latest
2026-03-27 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-03-27
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5
Download size: 527 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("lisat")

Format

Ni, S. (2026). lisat: Longitudinal Integration Site Analysis Toolkit (Version 0.1.2) [Computer software]. https://doi.org/10.32614/CRAN.package.lisat

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 lisat version 0.1.2 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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