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lineup

R/lineup package to detect sample mix-ups between two sets of measurements

https://github.com/kbroman/lineup

Science Score: 36.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 6 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (7.5%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

R/lineup package to detect sample mix-ups between two sets of measurements

Basic Info
  • Host: GitHub
  • Owner: kbroman
  • License: gpl-3.0
  • Language: R
  • Default Branch: main
  • Size: 11.8 MB
Statistics
  • Stars: 4
  • Watchers: 2
  • Forks: 3
  • Open Issues: 0
  • Releases: 3
Created over 13 years ago · Last pushed almost 2 years ago
Metadata Files
Readme Changelog License

README.md

R/lineup: detecting and correcting sample mix-ups

R-CMD-check CRAN_Status_Badge zenodo DOI

Karl W Broman

R/lineup is an R package with tools for detecting and correcting sample mix-ups between two sets of measurements, such as between gene expression data on two tissues.

This is particularly aimed at eQTL data for an experimental cross.

Citation

To cite R/lineup in publications use

  • Broman KW, Keller MP, Broman AT, Kendziorski C, Yandell BS, Sen Ś, Attie AD (2015) Identification and correction of sample mix-ups in expression genetic data: A case study. G3 5:2177-2186 doi:10.1534/g3.115.019778

License

This package is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License, version 3, as published by the Free Software Foundation.

This program is distributed in the hope that it will be useful, but without any warranty; without even the implied warranty of merchantability or fitness for a particular purpose. See the GNU General Public License for more details.

A copy of the GNU General Public License, version 3, is available at https://www.r-project.org/Licenses/GPL-3

Owner

  • Name: Karl Broman
  • Login: kbroman
  • Kind: user
  • Location: Madison, Wisconsin, USA
  • Company: University of Wisconsin-Madison

Professor in Dept of Biostatistics & Medical Informatics at UW–Madison. Applied statistician working on statistical genomics.

GitHub Events

Total
Last Year

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 236
  • Total Committers: 1
  • Avg Commits per committer: 236.0
  • Development Distribution Score (DDS): 0.0
Past Year
  • Commits: 4
  • Committers: 1
  • Avg Commits per committer: 4.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Karl Broman k****n@g****m 236

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 2
  • Total pull requests: 1
  • Average time to close issues: 4 days
  • Average time to close pull requests: 21 minutes
  • Total issue authors: 2
  • Total pull request authors: 1
  • Average comments per issue: 4.0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • kbroman (1)
  • AtomicNess123 (1)
Pull Request Authors
  • kbroman (1)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 351 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 8
  • Total maintainers: 1
cran.r-project.org: lineup

Lining Up Two Sets of Measurements

  • Versions: 8
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 351 Last month
Rankings
Forks count: 14.9%
Stargazers count: 24.2%
Average: 29.5%
Dependent packages count: 29.8%
Dependent repos count: 35.5%
Downloads: 43.2%
Maintainers (1)
broman@wisc.edu
Last synced: 11 months ago

Dependencies

DESCRIPTION cran
  • R >= 2.10.1 depends
  • class * imports
  • grDevices * imports
  • graphics * imports
  • parallel * imports
  • qtl >= 1.20 imports
  • stats * imports
  • utils * imports
  • devtools * suggests
  • knitr * suggests
  • rmarkdown * suggests
  • roxygen2 * suggests
  • testthat * suggests
.github/workflows/R-CMD-check.yaml actions
  • actions/checkout v3 composite
  • r-lib/actions/check-r-package v2 composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
  • r-lib/actions/setup-r-dependencies v2 composite