tidyqpcr

miqe qpcr qpcr-analysis r r-package rstats tidyverse

Score: 5.517452896464708

Last synced: about 16 hours ago
JSON representation

Repository metadata:

quantitative PCR analysis in the tidyverse

Host: GitHub
URL: https://github.com/ropensci/tidyqpcr
Owner: ropensci
License: other
Created: 2019-09-14T09:39:04.000Z (almost 7 years ago)
Default Branch: main
Last Pushed: 2024-05-31T13:27:32.000Z (about 2 years ago)
Last Synced: 2026-04-08T04:10:24.036Z (3 months ago)
Topics: miqe, qpcr, qpcr-analysis, r, r-package, rstats, tidyverse
Language: R
Homepage: https://docs.ropensci.org/tidyqpcr/
Size: 17.4 MB
Stars: 56
Watchers: 4
Forks: 18
Open Issues: 27
Metadata Files:
- Readme: README.md
- Changelog: NEWS.md
- Contributing: .github/CONTRIBUTING.md
- License: LICENSE.md
- Citation: CITATION.cff
- Codemeta: codemeta.json

CodeMeta metadata:

@context: https://doi.org/10.5063/schema/codemeta-2.0
@type: SoftwareSourceCode
Identifier: tidyqpcr
Description: This package is for reproducible quantitative PCR (qPCR) analysis using packages from the tidyverse, notably dplyr and ggplot2. It normalizes (by ddCq), summarizes, and plots pre-calculated Cq data, and plots raw amplification and melt curves from Roche lightcycler machines. It does NOT (yet) calculate Cq data from amplification curves.
Name: tidyqpcr: Quantitative PCR Analysis with the Tidyverse
Related link: https://docs.ropensci.org/tidyqpcr
Code repository: https://github.com/ropensci/tidyqpcr
Issue tracker: https://github.com/ropensci/tidyqpcr/issues
License: Apache License 2
Version: 1.0
Programming language:
- @type: ComputerLanguage
- Name: R
- Url: https://r-project.org
Runtime platform: R version 4.1.1 (2021-08-10)
Author:
- - @type: Person
  - Given name: Edward
  - Family name: Wallace
  - Email: Edward.Wallace@ed.ac.uk
Contributor:
- - @type: Person
  - Given name: Sam
  - Family name: Haynes
  - Email: samuel.haynes10@gmail.com
Maintainer:
- - @type: Person
  - Given name: Edward
  - Family name: Wallace
  - Email: Edward.Wallace@ed.ac.uk
Software suggestions:
- - @type: SoftwareApplication
  - Identifier: knitr
  - Name: knitr
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=knitr
- - @type: SoftwareApplication
  - Identifier: rmarkdown
  - Name: rmarkdown
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=rmarkdown
- - @type: SoftwareApplication
  - Identifier: testthat
  - Name: testthat
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=testthat
- - @type: SoftwareApplication
  - Identifier: covr
  - Name: covr
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=covr
Software requirements:
- 1:
  - @type: SoftwareApplication
  - Identifier: R
  - Name: R
  - Version: >= 3.1.0
- 2:
  - @type: SoftwareApplication
  - Identifier: tibble
  - Name: tibble
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=tibble
- 3:
  - @type: SoftwareApplication
  - Identifier: rlang
  - Name: rlang
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=rlang
- 4:
  - @type: SoftwareApplication
  - Identifier: dplyr
  - Name: dplyr
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=dplyr
- 5:
  - @type: SoftwareApplication
  - Identifier: ggplot2
  - Name: ggplot2
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=ggplot2
- 6:
  - @type: SoftwareApplication
  - Identifier: scales
  - Name: scales
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=scales
- 7:
  - @type: SoftwareApplication
  - Identifier: readr
  - Name: readr
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=readr
- 8:
  - @type: SoftwareApplication
  - Identifier: forcats
  - Name: forcats
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=forcats
- 9:
  - @type: SoftwareApplication
  - Identifier: assertthat
  - Name: assertthat
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=assertthat
- 10:
  - @type: SoftwareApplication
  - Identifier: tidyr
  - Name: tidyr
  - Provider:
    - @id: https://cran.r-project.org
    - @type: Organization
    - Name: Comprehensive R Archive Network (CRAN)
    - Url: https://cran.r-project.org
  - Same as: https://CRAN.R-project.org/package=tidyr
- System requirements:
File size: 5946.526KB
Citation:
- - @type: CreativeWork
  - Date published: 2021
  - Author:
    - - @type: Organization
      - Name: Edward Wallace
    - - @type: Organization
      - Name: Sam Haynes
  - Name: The tidyqpcr R Package: Quantitative PCR analysis in the tidyverse.
  - Url: https://github.com/ewallace/tidyqpcr
Release notes: https://github.com/ropensci/tidyqpcr/blob/master/NEWS.md
Readme: https://github.com/ropensci/tidyqpcr/blob/main/README.md
Cont integration:
- https://codecov.io/gh/ropensci/tidyqpcr/branch/main
- https://github.com/ropensci/tidyqpcr/actions
Development status: https://www.repostatus.org/#active
Keywords:
- qpcr-analysis
- tidyverse
- r
- rstats
- r-package
- miqe
- qpcr

Owner metadata:

Name: rOpenSci
Login: ropensci
Email: info@ropensci.org
Kind: organization
Description:
Website: https://ropensci.org/
Location: Berkeley, CA
Twitter: rOpenSci
Company:
Icon url: https://avatars.githubusercontent.com/u/1200269?v=4
Repositories: 307
Last Synced at: 2023-03-10T20:30:59.242Z
Profile URL: https://github.com/ropensci

GitHub Events

Total

Watch event: 5
Total: 5

Last Year

Watch event: 4
Total: 4

Committers metadata

Last synced: 8 months ago

Total Commits: 234
Total Committers: 3
Avg Commits per committer: 78.0
Development Distribution Score (DDS): 0.402

Commits in past year: 0
Committers in past year: 0
Avg Commits per committer in past year: 0.0
Development Distribution Score (DDS) in past year: 0.0

Name	Email	Commits
Edward Wallace	e**e@g**m	140
DimmestP	d**p@g**m	93
Maëlle Salmon	m**n@y**e	1

Issue and Pull Request metadata

Last synced: 10 months ago

Total issues: 59
Total pull requests: 41
Average time to close issues: 6 months
Average time to close pull requests: 19 days
Total issue authors: 4
Total pull request authors: 3
Average comments per issue: 1.46
Average comments per pull request: 0.76
Merged pull request: 38
Bot issues: 0
Bot pull requests: 0

Past year issues: 0
Past year pull requests: 0
Past year average time to close issues: N/A
Past year average time to close pull requests: N/A
Past year issue authors: 0
Past year pull request authors: 0
Past year average comments per issue: 0
Past year average comments per pull request: 0
Past year merged pull request: 0
Past year bot issues: 0
Past year bot pull requests: 0

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/ropensci/tidyqpcr

Top Issue Authors

ewallace (39)
DimmestP (17)
ramiromagno (2)
mpadge (1)

Top Pull Request Authors

ewallace (28)
DimmestP (14)
maelle (1)

Top Issue Labels

rOpensci-review (21)
documentation (8)
help wanted (7)
enhancement (6)
wontfix (2)
good first issue (1)
dissemination (1)

Top Pull Request Labels

rOpensci-review (5)

Dependencies

DESCRIPTION cran

R >= 3.1.0 depends
tibble * depends
assertthat * imports
dplyr * imports
forcats * imports
ggplot2 * imports
readr * imports
rlang * imports
scales * imports
tidyr * imports
covr * suggests
knitr * suggests
rmarkdown * suggests
testthat * suggests

.github/workflows/R-CMD-check.yaml actions

actions/checkout v2 composite
actions/upload-artifact main 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

.github/workflows/draft-pdf.yml actions

actions/checkout v2 composite
actions/upload-artifact v1 composite
openjournals/openjournals-draft-action master composite

.github/workflows/fair-software.yml actions

fair-software/howfairis-github-action 0.2.1 composite

.github/workflows/test-coverage.yaml actions

actions/checkout v2 composite
r-lib/actions/setup-r v1 composite
r-lib/actions/setup-r-dependencies v1 composite

ecosyste.ms

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Summary