Public | Automated Build

Last pushed: 2 years ago
Short Description
Call peaks automatically.
Full Description

README

This README documents the steps necessary to get the peak application up and running.

What is this repository for?

  • Custom automated peak caller for Cedars-Sinai bioinformatics. Depends Macs2, HOMER, SPP and MUSIC.
  • Version 0.1
  • Go to the Bitbucket repo.
  • Go to the Docker image.

How do I get set up?

  • pull the Docker image from Dockerhub: docker pull dennishazelett/peak
  • Configuration:
    Required: a directory with bam, bedgraph, wig etc
    Required: a manifest
    | SAMPLE | MARK | SRC | BUILD | FILE |
    |---------|-------|-----|-------|----------------------|
    | K562 | K4M1 | BAM | hg19 | myk562file1.bam |
    | K562 | K4M3 | WIG | hg19 | myk562file2.wig |
    | K562 | K4M3 | BDG | hg19 | ENCFF001XGT.bedgraph |

  • Dependencies
    Docker image dennishazelett/peak

  • How to run tests
  • Deployment instructions

Contribution guidelines

  • Writing tests
  • Code review
  • Other guidelines

Who do I talk to?

  • Repo owner or admin
  • Other community or team contact
Docker Pull Command
Owner
dennishazelett
Source Repository

Comments (0)