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Open Source Science

https://github.com/airr-community/rep-cred

SW Tools Group - Repertoire Credibility Tool

https://github.com/airr-community/rep-cred

Science Score: 13.0%

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
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (10.7%) to scientific vocabulary
Last synced: 9 months ago · JSON representation

Repository

SW Tools Group - Repertoire Credibility Tool

Basic Info
  • Host: GitHub
  • Owner: airr-community
  • License: cc-by-4.0
  • Language: R
  • Default Branch: master
  • Size: 12.5 MB
Statistics
  • Stars: 0
  • Watchers: 14
  • Forks: 3
  • Open Issues: 25
  • Releases: 0
Created over 6 years ago · Last pushed almost 2 years ago
Metadata Files
Readme Changelog License

README.md

Lifecycle: experimental Documentation Status Docker Image CI

Running RepCred

Docker - GUI

Pull the container:

docker pull airrc/rep-cred:latest

To launch the shiny application use the command below. Then open in your browser http://localhost:3838.

docker run --rm -ti --user shiny -p 3838:3838 airrc/rep-cred:latest

If you are using linux, you may need to use the command line

docker run --rm --network host -ti --user shiny -p 3838:3838 airrc/rep-cred:latest

To open a terminal inside the container use:

docker run --rm -ti --user shiny -p 3838:3838 airrc/rep-cred:latest bash

Docker - command line

Pull the container:

docker pull airrc/rep-cred:latest

Get example data:

wget https://raw.githubusercontent.com/airr-community/rep-cred/master/inst/extdata/ExampleDb.tsv

Run repcred:

docker run --rm -v $(pwd):/home:z airrc/rep-cred:latest repcred -r ExampleDb.tsv -o repcred-report

Local Installation

Pre-requisites

RepCred requires a recent version of pandoc. This is installed with Rstudio and the easiest approach is to check that you are using a recent version, although other installation methods are described in the documentation.

Installing RepCred

Repdred can be installed from github:

devtools::install_github('airr-community/rep-cred')

Running RepCred

RepCred can be started from an R prompt as follows:

library(repcred) repcredWeb()

Binder

Binder

Owner

  • Name: AIRR Community
  • Login: airr-community
  • Kind: organization

GitHub Events

Total
Last Year

Issues and Pull Requests

Last synced: 9 months ago

All Time
  • Total issues: 40
  • Total pull requests: 3
  • Average time to close issues: 3 months
  • Average time to close pull requests: 6 days
  • Total issue authors: 3
  • Total pull request authors: 2
  • Average comments per issue: 1.95
  • Average comments per pull request: 0.0
  • Merged pull requests: 3
  • 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
  • ssnn-airr (15)
  • bcorrie (14)
  • williamdlees (11)
Pull Request Authors
  • GeorginaLeslie (2)
  • noahyannlee (1)
Top Labels
Issue Labels
bug (11) enhancement (8) documentation (5) good first issue (1)
Pull Request Labels

Dependencies

DESCRIPTION cran
  • R >= 3.1.2 depends
  • shiny * depends
  • BiocGenerics * imports
  • Biostrings * imports
  • CollessLike * imports
  • GenomeInfoDb * imports
  • IRanges * imports
  • S4Vectors * imports
  • XVector * imports
  • airr * imports
  • alakazam * imports
  • ape * imports
  • bookdown * imports
  • data.table * imports
  • dplyr * imports
  • ggplot2 * imports
  • kableExtra * imports
  • knitr * imports
  • plotly * imports
  • reticulate * imports
  • rmarkdown * imports
  • seqinr * imports
  • spgs * imports
  • stringr * imports
  • sumrep * imports
  • testthat * suggests
.github/workflows/docker-image.yml actions
  • actions/checkout v3 composite
  • actions/upload-artifact v3 composite
  • docker/build-push-action v4 composite
  • docker/login-action v2 composite
  • docker/setup-buildx-action v2 composite
  • docker/setup-qemu-action v2 composite
archive_scripts/tests/Dockerfile docker
  • rocker/shiny 4.2.3 build
docker/Dockerfile docker
  • rocker/shiny 4.2.3 build