R Observatory: Metrics for MixTwice version 2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MixTwice

2.0Package record

Large-Scale Hypothesis Testing by Variance Mixing

0packages depend

2.6Kdownloads / year

–test coverage

9/13flavors OK

Overview

About

Maintained by Zihao ZhengCRAN page ↗

Implements large-scale hypothesis testing by variance mixing. It takes two statistics per testing unit -- an estimated effect and its associated squared standard error -- and fits a nonparametric, shape-constrained mixture separately on two latent parameters. It reports local false discovery rates (lfdr) and local false sign rates (lfsr). Manuscript describing algorithm of MixTwice: Zheng et al(2021) <doi: 10.1093/bioinformatics/btab162>.

Install

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

install.packages("MixTwice", 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-mixtwice

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-MixTwice

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-MixTwice

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

4NOTE9OK

Check messages

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

Maintainer: ‘Zihao Zheng <zihao.zheng@wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zihao",
                      family = "Zheng",
                      role = c("aut", "cre"),
                      email = "zihao.zheng@wisc.edu"),
               person(given = "Michael",
                      family = "A.Newton",
                      role = "aut"))
as necessary.

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

Namespaces in Imports field not imported from:
  ‘ashr’ ‘fdrtool’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 53 s · r-devel-windows-x86_64

Status changes

NOTE9 OK, 4 NOTENow
NOTE10 OK, 4 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 3includes a package overview page
Examples that run: 100%3 run in a plain check
Exported functions with examples: 100%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 100%

How these are measured

Downloads

2.6K

CRAN downloads in the past year

Rank #18,262 · ~7/day · ~221/mo

Releases R versions

Daily download trend is not available in this view yet.

24330 days

71090 days

2.6K1 year

Compare downloads with other packages →

Also on93 r2u4 autocran

How downloads are counted

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Installing MixTwice adds 13 packages (8 with compiled code, 7.3 MB of source tarballs). Heaviest: invgamma 2.5 MB, Rcpp 1.8 MB, RcppArmadillo 1.0 MB.

Depends (1)

R >= 3.5.0

Imports (5)

alabama ashr fdrtool Isostats

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) (2)

Zihao Zheng

Michael A.Newton

Maintainer since 1.1 (2021)

Releases (2)

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
R
R 4.2.0 released · 2022-04-22
2.0Latest
record
2022-03-02 · current release · diff ↗
R
R 4.1.0 released · 2021-05-18
1.1
record
2021-01-22
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-01-22
Total releases: 2 / 5 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.5.0
Bundled data: 2.0 MB / 2 files
Download size: 2.1 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MixTwice")

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 MixTwice version 2.0 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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