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nfcore/rnafusion

nfcore/rnafusion version 1.0.1 - 2018/04/06

Added

  • Added support for extra parameters for tools STAR-Fusion, FusionCatcher and fusion-report
  • Added example configuration for singularity and docker
  • Added fusion-report into the stack #62, #55, #53, #51
  • Added nextflow helper script download-singularity-img.nf
  • Added nextflow helper script download-references.nf
  • Added Jenkinsfile for in-house testing

Changed

  • Updated installation of FusionCatcher (available now on bioconda)

Fixed

  • Fixed empty symlinks (input.X) in fusion-report #68
  • Fixed FASTA issues #60
  • Fixed centralized nf-core/config #64
  • Fixed scrape_software_versions.py to parse tools versions correctly #65

Removed

  • Removed Singularity

nfcore/rnafusion version 1.0 - 2018/02/14

Version 1.0 marks the first production release of this pipeline under the nf-core flag. The pipeline includes additional help scripts to download references for fusion tools and Singularity images.

  • Fusion gene detection tools:
    • STAR-Fusion v1.5.0
    • Fusioncatcher v1.00
    • Ericscript v0.5.5
    • Pizzly v0.37.3
    • Squid v1.5
  • Visualization tools:
    • FusionInspector v1.3.1
  • Other tools:
    • Summary report
    • FastQ v0.11.8
    • MultiQC v1.7
    • FusionGDB updated 2019/01/23

SciLifeLab/NGI-RNAfusion version 0.1 (ARCHIVED) - 2018/10/05

Initial release of NGI-RNAfusion, created with the nf-core template. Source code can be found at SciLifeLab/NGI-RNAfusion. The solution works with Docker and Singularity.

  • Tools:
    • STAR-Fusion
    • Fusioncatcher
    • FusionInspector
    • Custom tool for fusion comparison - generates intersection of detected fusion genes from all tools