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https://github.com/spiros/docker-ukbiobank-utils

Docker image for running UK Biobank utilities: ukbunpack, ukbfetch, ukblink, ukbgene, ukbmd5, ukbconv, and gfetch
https://github.com/spiros/docker-ukbiobank-utils

Last synced: 2 days ago
JSON representation

Docker image for running UK Biobank utilities: ukbunpack, ukbfetch, ukblink, ukbgene, ukbmd5, ukbconv, and gfetch

Host: GitHub
URL: https://github.com/spiros/docker-ukbiobank-utils
Owner: spiros
License: apache-2.0
Created: 2019-02-21T16:51:53.000Z (over 5 years ago)
Default Branch: master
Last Pushed: 2021-07-27T08:03:52.000Z (over 3 years ago)
Last Synced: 2024-08-02T16:47:20.217Z (3 months ago)
Language: Dockerfile
Homepage: http://denaxaslab.org
Size: 17.6 KB
Stars: 11
Watchers: 2
Forks: 5
Open Issues: 0
Metadata Files:
- Readme: README.md
- License: LICENSE

Awesome Lists containing this project

awesome-uk-biobank - docker-ukbiobank-utils

README

# ukbiobank utils

[![Docker Automated build](https://img.shields.io/docker/cloud/build/spiros123/ukbiobank-utils)](https://hub.docker.com/repository/docker/spiros123/ukbiobank-utils) [![Docker Pulls](https://img.shields.io/docker/pulls/spiros123/ukbiobank-utils)](https://hub.docker.com/repository/docker/spiros123/ukbiobank-utils) [![](https://images.microbadger.com/badges/image/spiros123/ukbiobank-utils.svg)](https://microbadger.com/images/spiros123/ukbiobank-utils "Get your own image badge on microbadger.com")

## About
This is a repo to hold a Docker image for UK Biobank utilities: ukbunpack, ukbfetch, ukblink, ukbgene, ukbmd5, ukbconv
By default, UK Biobank will only [provide binaries](http://biobank.ctsu.ox.ac.uk/crystal/download.cgi) for Linux and Windows for their utilities.
This Docker image will allow you to run them anywhere you want as long as you have Docker (i.e. OS X).

## Build

``` bash
docker build -t ukbiobank-utils .
```

## Run
``` bash
# Decode
docker run -v $PWD:/data --rm -it spiros123/ukbiobank-utils ukbunpack /data/ukbXXXXXX.enc /data/

# Convert to csv/r/docs/etc
docker run -v $PWD:/data --rm -it spiros123/ukbiobank-utils ukbconv /data/ukbXXXXX.enc_ukb csv

```