R Observatory: Metrics for NBPSeq version 0.3.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

NBPSeq

0.3.1Package record

Negative Binomial Models for RNA-Sequencing Data

0packages depend

5.4Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Yanming DiCRAN page ↗

Negative Binomial (NB) models for two-group comparisons and regression inferences from RNA-Sequencing Data.

Install

R (CRAN)Ubuntu (r2u)

install.packages("NBPSeq", 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-nbpseq

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

Health

CRAN checks

2NOTE11OK

Check messages

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

Maintainer: ‘Yanming Di <diy@stat.oregonstate.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yanming",
                      family = "Di",
                      role = c("aut", "cre"),
                      email = "diy@stat.oregonstate.edu"),
               person(given = c("Daniel", "W"),
                      family = "Schafer",
                      role = "aut",
                      email = "schafer@stat.oregonstate.edu"),
               person(given = c("with", "contributions", "from", "Jason", "S"),
                      family = "Cumbie",
                      role = "aut",
                      email = "cumbiej@onid.orst.edu"),
               person(given = c("Jeff", "H"),
                      family = "Chang.",
                      role = "aut",
                      email = "changj@cgrb.oregonstate.edu"))
as necessary.

CRAN check page ↗

Slowest check: 2.6 min · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-05-11
ERROR10 OK, 2 NOTE, 1 ERROR2026-05-04
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.3.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 19includes a package overview page
Examples that run: 50%5 run in a plain check · 5 hold no code
Exported functions with examples: 80%
Documented parameters: 93%
Return-value docs: 100%
Help pages citing references: 26%

How these are measured

Downloads

5.4K

CRAN downloads in the past year

Rank #8,309 · ~15/day · ~452/mo

Releases R versions

Daily download trend is not available in this view yet.

43030 days

1.1K90 days

5.4K1 year

Compare downloads with other packages →

Also on410 r2u1.5K bioconda43 c2d4u

How downloads are counted

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Installing NBPSeq adds 0 packages. 1 more not on CRAN is not measured.

Depends (1)

R >= 3.00

Imports (2)

splinesqvalue

LinkingTo (0)

none

Suggests (0)

none

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 (from the free-text Author field) (4)

Yanming Di

Daniel W Schafer

with contributions from Jason S Cumbie

Jeff H Chang.

Maintainer since 0.1.4 (2011)

Releases (5)

Pick two releases to compare their code metrics.

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
0.3.1Latest
record
2022-06-09 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
0.3.0
record
2014-04-15 · diff ↗ ·
added 10 exports
estimate.disp, estimate.dispersion, estimate.norm.factors, exact.nb.test, irls.nb.1, nb.glm.test, nbp.test, prepare.nb.data, prepare.nbp, test.coefficient
R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03

Show 6 earlier eventsHide 6 earlier events

0.1.8
record
2012-11-19 · diff ↗
0.1.6
record
2012-05-26 · diff ↗
R
R 2.15.0 released · 2012-03-30
R
R 2.14.0 released · 2011-10-31
0.1.4
record
2011-04-24
R
R 2.13.0 released · 2011-04-13

Package metadata

First published: 2011-04-24
Total releases: 5 / 15 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.00
Bundled data: 152 KB / 1 file
Download size: 205 KB

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("NBPSeq")

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 NBPSeq version 0.3.1 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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