nf-core/rnafusion:1.1.0

v1.1.0 - 2020/02/10

• Fusion gene detection tools:
  • Arriba v1.1.0
  • Ericscript v0.5.5
  • Fusioncatcher v1.20
  • Pizzly v0.37.3
  • Squid v1.5
  • STAR-Fusion v1.6.0
• Visualization tools:
  • Arriba v1.1.0
  • FusionInspector v1.3.1
• Other tools:
  • fusion-report v2.0.1
  • FastQ v0.11.8
  • MultiQC v1.7
  • STAR aligner v2.7.0f

Added

• Added Arriba 1.1.0 #63
• Added Batch mode #54

Changed

• Updated examples and configurations
• Upgraded fusion-report v1.0.0 to fusion-report v2.0.1
• Divided running_tools into fusion and visualization tools
• Updated STAR in Squid, Fusion-Inspector version to 2.7.0f
• Upgraded STAR-Fusion v1.5.0 to STAR-Fusion v1.6.0 #83
• Parameter igenomesIgnore renamed to igenome #81
• Finished STAR-Fusion file renaming #18
• Updated logos
• Updated to nf-core 1.8 TEMPLATE

Fixed

• iGenomes optional, but not really #91
• Updated fusioncatcher to latest 1.20 version also solving #95

Removed

• Variables pizzly_fasta and pizzly_gtf have been removed and replaced with transcript and gtf
• Jenkisfile, test configuration, pylintrc configuration
• Removed igenomes.config because the pipeline only supports Ensembl version