PopGenHelpR

PopGenHelpR is an R package that estimates commonly used population genomic statistics and generates publication quality figures.

https://github.com/kfarleigh/popgenhelpr

Science Score: 26.0%

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
Found .zenodo.json file
○
DOI references
○
Academic publication links
○
Academic email domains
○
Institutional organization owner
○
JOSS paper metadata
○
Scientific vocabulary similarity
Low similarity (12.7%) to scientific vocabulary

Keywords

diversity fst heterozygosity interpolation neis population-genetics population-genomics private-alleles r snmf structure vcf

Last synced: 5 months ago · JSON representation

Repository

PopGenHelpR is an R package that estimates commonly used population genomic statistics and generates publication quality figures.

Basic Info

Host: GitHub
Owner: kfarleigh
License: gpl-3.0
Language: HTML
Default Branch: main
Homepage:
Size: 30.3 MB

Statistics

Stars: 3
Watchers: 1
Forks: 0
Open Issues: 0
Releases: 0

Topics

diversity fst heterozygosity interpolation neis population-genetics population-genomics private-alleles r snmf structure vcf

Created about 3 years ago · Last pushed 6 months ago

Metadata Files

Readme Changelog License

PopGenHelpR version 1.4.1

What is PopGenHelpR?

PopGenHelpR is an R package designed to estimate commonly used population genomic statistics and to generate publication quality figures. The current version of PopGenHelpR uses vcf, geno (012), and csv files to generate output, however, future implementations will expand the input file type options. Please see the vignette and other articles for examples.

We plan to continue developing the package to include more functions, feel free to reach out to Keaka Farleigh if you have any suggestions or would like to collaborate.

Do you use PopGenHelpR in your research or class and want to be kept up to date?

Please email Keaka Farleigh (keakafarleigh@gmail.com) to be informed about any updates or pending changes to PopGenHelpR.

Installation

You can install PopGenHelpR using:

r install.packages("PopGenHelpR")

You can install the development version of PopGenHelpR using devtools:

r devtools::install_github("kfarleigh/PopGenHelpR")

Owner

Name: Keaka Farleigh
Login: kfarleigh
Kind: user
Location: Oxford, Ohio
Company: Miami University

Website: https://kfarleigh.github.io/
Repositories: 3
Profile: https://github.com/kfarleigh

I am interested in the mechanisms that influence genetic variation.

GitHub Events

Total

Issues event: 7
Issue comment event: 1
Push event: 52

Last Year

Issues event: 7
Issue comment event: 1
Push event: 52

Issues and Pull Requests

Last synced: 6 months ago

All Time

Total issues: 8
Total pull requests: 0
Average time to close issues: about 1 month
Average time to close pull requests: N/A
Total issue authors: 1
Total pull request authors: 0
Average comments per issue: 0.5
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 4
Pull requests: 0
Average time to close issues: 3 months
Average time to close pull requests: N/A
Issue authors: 1
Pull request authors: 0
Average comments per issue: 0.25
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

kfarleigh (7)

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

Total packages: 1
Total downloads:
- cran 392 last-month

Total dependent packages: 0
Total dependent repositories: 0
Total versions: 7
Total maintainers: 1

cran.r-project.org: PopGenHelpR

Streamline Population Genomic and Genetic Analyses

Homepage: https://kfarleigh.github.io/PopGenHelpR/
Documentation: http://cran.r-project.org/web/packages/PopGenHelpR/PopGenHelpR.pdf
License: GPL (≥ 3)
Latest release: 1.4.1
published 6 months ago

Versions: 7
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 392 Last month

Rankings

Forks count: 28.8%

Dependent packages count: 29.8%

Stargazers count: 31.7%

Dependent repos count: 35.5%

Average: 38.9%

Downloads: 68.7%

Maintainers (1)

keakafarleigh@gmail.com