XYomics

0.1.5

Analysis of Sex Differences in Omics Data for Complex Diseases

0packages depend

3.9Kdownloads / year

–test coverage

12/13checks pass

Overview

About

Maintained by Enrico GlaabFirst published 2025-11-135 releasesCRAN page ↗

Tools to analyze sex differences in omics data for complex diseases. It includes functions for differential expression analysis using the 'limma' method doi:10.1093/nar/gkv007, interaction testing between sex and disease, pathway enrichment with 'clusterProfiler' doi:10.1089/omi.2011.0118, and gene regulatory network (GRN) construction and analysis using 'igraph'. The package enables a reproducible workflow from raw data processing to biological interpretation.

Install

R (CRAN)Ubuntu (r2u)

install.packages("XYomics", 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-xyomics

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

1NOTE12OK

Failing flavors

NOTE r-devel-windows-x86_64

Slowest check: 11.3 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-07-31
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-27
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-21
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
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

Show 2 earlier snapshots

OK2026-05-14
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-10
11 OK · 1 NOTE · 0 WARNING · 2 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 4%

Downloads

3.9K

CRAN downloads in the past year

Rank #6,593 · ~11/day · ~321/mo

Releases R versions

Daily download trend is not available in this view yet.

35830 days

1.4K90 days

3.9K1 year

Compare downloads with other packages →

Also on277 r2u

Dependencies

Declared dependencies

31 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.6

Imports (20)

limma igraph edgeR SeuratObject Seurat data.table ggplot2 tidyrgridggraph dplyr AnnotationDbi ggrepel Rcpp cowplot patchworkmethodsDESeq2 S4Vectors clusterProfiler

LinkingTo (2)

Rcpp BH

Suggests (11)

R.utils DT gridExtra knitr htmltools kableExtra rmarkdown stringr ReactomePA org.Hs.eg.db MAST

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (4)

Maintainer (1)

Enrico Glaab

Author, Maintainer

Authors (3)

Author, Maintainer

Author

Author

Package Timeline

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

0.1.5Latest
2026-07-30 · current release · diff ↗
0.1.4
2026-05-11 · diff ↗
R
R 4.6.0 released · 2026-04-24
0.1.3
2026-01-08 · diff ↗
0.1.2
2025-12-15 · diff ↗
0.1.1
2025-11-13
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-11-13
Total releases: 5 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.6
Download size: 1.7 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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