sfu-ireceptor / rep-cred

SW Tools Group - Repertoire Credibility Tool

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 --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