FunSeq2 - A flexible framework to prioritize regulatory mutations from cancer genome sequencing
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Latest Version (2.1.6)

   Source code: here (hg19, updated May 2015)
   Docker image: here (tested July 2015)
   Pre-built data context: here
   Whole genome scores (hg19):
      1. Tab delimited: here (~15GB)
      2. Associated index file: here
   Documentation: here

Version 2.1.0:

Original published work by Fu et al, 2014
   Source code: here
   Pre-built data context: here
   Source code & accessory files for building data context:
      1. Identifying regulatory element-gene linkages: here (~40GB)       2. Identifying ultra-sensitive regions: here
   Whole genome scores (hg19):
      1. Tab delimited: here (~15GB)
      2. Associated index file: here
      3. BigWig format: here (~9GB)
   Documentation: here

This software is freely licensed under the Creative Commons license (Attribution-NonCommerical). The main aspects of this license include the following:

  1. The work can be made available for non-commercial use
  2. Derivatives can be made of the work
  3. Derivatives do not have to be made available under the same terms governing the original, and
  4. We should be cited.

Updates


✢ (May 2016) FunSeq v2.1.6 released

✢ (July 2015) FunSeq v2.1.2 docker image

✢ (May 2015) Integration of Roadmap Epigenome enhancer-gene linkages

✢ (April 2015) FunSeq v2.1.2 released

✢ (July 2014) Incorporation of noncoding scores

✢ (January 2014) FunSeq v2.1.0 released

Copyright © 2013, GersteinLab@Yale