docker-4-bioinformatics

Short Course to get Bioinformaticians at CRUK-CI up-to-speed on Docker

Use-cases

1. You want to try out some new software, and the developers have created a docker container
   • e.g. delly
   • https://hub.docker.com/r/trausch/delly/
2. Creating a sandbox environment for a training course
   • https://github.com/bioinformatics-core-shared-training/cruk-summer-school-2016
3. Creating a reproducible environment for your analysis
   • https://github.com/sje30/waverepo
4. Release you entire pipieline
   • https://github.com/cancerit/cgpbox

References:-

• Bio in Docker workshop http://f1000research.com/channels/containers?&selectedDomain=SLIDES
• Short youtube explanation https://youtu.be/aLipr7tTuA4
• The impact of Docker containers on the performance of genomic pipelines https://peerj.com/articles/1273/
• Stephen Eglen Reproducible vignette in docker https://github.com/sje30/waverepo