R Observatory: Metrics for POSTm version 1.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

POSTm

1.4Package record

Phylogeny-Guided OTU-Specific Association Test for Microbiome Data

0packages depend

2.8Kdownloads / year

0.0%test coverage

13/13flavors OK

Overview

About

Maintained by Shannon T. HollowayCRAN page ↗

Implements the Phylogeny-Guided Microbiome OTU-Specific Association Test method, which boosts the testing power by adaptively borrowing information from phylogenetically close OTUs (operational taxonomic units) of the target OTU. This method is built on a kernel machine regression framework and allows for flexible modeling of complex microbiome effects, adjustments for covariates, and can accommodate both continuous and binary outcomes.

Install

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

install.packages("POSTm", 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-postm

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-POSTm

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-POSTm

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: 1.9 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25

Show 2 earlier changesHide 2 earlier changes

ERROR13 OK, 1 ERROR2026-03-30
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.4

READMENoVignettesYes · 1 · dynamicNEWSYes · 67% structuredCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 5
Examples that run: 100%4 run in a plain check
Exported functions with examples: 100%
Documented parameters: 56%
Return-value docs: 100%
Help pages citing references: 20%

Vignettes (1)

POSTm: $\text{\underline{P PDF

How these are measured

Downloads

2.8K

CRAN downloads in the past year

Rank #16,055 · ~8/day · ~231/mo

Releases R versions

Daily download trend is not available in this view yet.

29930 days

78490 days

2.8K1 year

Compare downloads with other packages →

Also on70 r2u7 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing POSTm adds 4 packages (4 with compiled code, 3.4 MB of source tarballs). Heaviest: Rcpp 1.8 MB, ape 1.4 MB, digest 231 KB.

Depends (1)

methods

Imports (2)

CompQuadForm ape

LinkingTo (0)

none

Suggests (3)

multtest rmarkdown 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 (3)

Shannon T. Holloway

Author, Maintainer · added in 1.2

Caizhi Huang

Author

Jung-Ying Tzeng

Author

Maintainer since 1.1 (2021)

Listed in earlier versions (1)

Shannon Holloway

no longer listed · 1.1

Releases (4)

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
1.4Latest
record
2024-04-18 · current release · diff ↗
1.3
record
2023-12-14 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.2
record
2022-06-07 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.1
record
2021-04-30
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-04-30
Total releases: 4 / 5 yrs
License: GPL-2 OSI
Bundled data: 177 KB / 1 file
Download size: 1.3 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("POSTm")

Format

Holloway, S. T., Huang, C., & Tzeng, J. (2024). POSTm: Phylogeny-Guided OTU-Specific Association Test for Microbiome Data (Version 1.4) [Computer software]. https://doi.org/10.32614/CRAN.package.POSTm

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 POSTm version 1.4 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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