APIS

2.0.8

Auto-Adaptive Parentage Inference Software Tolerant to Missing Parents

0packages depend

9Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Julien RocheFirst published 2019-08-199 releasesCRAN page ↗

Parentage assignment package. Parentage assignment is performed based on observed average Mendelian transmission probability distributions or Exclusion. The main functions of this package are the function APIS_2n(), APIS_3n() and launch_APIShiny(), which perform parentage assignment.

Install

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

install.packages("APIS", 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-apis

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

# 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-APIS

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-APIS

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 3.0 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

CRAN downloads in the past year

Rank #4,666 · ~25/day · ~749/mo

Releases R versions

Daily download trend is not available in this view yet.

49330 days

2K90 days

9K1 year

Compare downloads with other packages →

Also on427 r2u73 autocran

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Depends (2)

R >= 3.5.0shinyBS

Imports (14)

cowplot data.table doParallel dplyr DT foreach ggplot2 gridExtra htmltoolsmethodsplotly rlang shiny shinythemes

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 4,082 (76%)C 904 (17%)Rd 404 (7%)

Code characteristics

Cyclomatic complexity: 3.0 median / 124 max

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

42 10 exported

Complexity

7.6 avg / 124 max

Call network

42 nodes / 66 edges

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

People & History

People (10)

Maintainer (1)

Julien Roche

Author, Maintainer · added in 2.0.1

Authors (10)

Julien Roche

Author, Maintainer · added in 2.0.1

François Allal

Author

Mathieu Besson

Author · added in 2.0.1

Sophie Brard-Fudulea

Author

Jonathan D'Ambrosio

Author · added in 2.0.1

Author

Author

Author

Author

Author

Listed in earlier versions (1)

Romain Morvezin

no longer listed · 2.0.1 to 2.0.7

Package Timeline

9 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
2.0.8Latest
2024-11-04 · current release · diff ↗
2.0.7
2024-10-02 · diff ↗
R
R 4.4.0 released · 2024-04-24
2.0.4
2023-11-30 · diff ↗
2.0.3
2023-11-23 · diff ↗
2.0.2
2023-09-06 · diff ↗
2.0.1
2023-06-30 · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.0.1
2020-12-02 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.0.0
2019-12-12 · diff ↗
0.1.0
2019-08-19

Show 1 earlier events

R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-08-19
Total releases: 9 / 7 yrs
License: GPL
Minimum R: ≥ 3.5.0
Bundled data: 27 KB / 4 files
Download size: 376 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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