v0.2.0 Mighty Manneken Pis

Added

1. Added keyword shortcuts to the --callers parameter (these can also be used as comma-separated entries to the parameter):
   • all: Use all callers available in the pipeline
   • sv: Use all SV callers available in the pipeline
   • cnv: Use all CNV callers available in the pipeline
   • rre: Use all repeat region expansion callers available in the pipeline
2. Added the possibilty to annotate on HPO terms. Add the right HPO terms to the samplesheet in the hpo field

Changes

1. Updated all WisecondorX modules to version 1.2.6 and added the --seed argument to WisecondorX predict
2. Removed support for the phenotypes VEP plugin. Common VEP plugin support will be added later
3. Made the main workflow pluggable, making it possible to use this pipeline in a meta pipeline
4. Updated all modules to their latest version

Fixed

1. The smoove outputs are now correct when using --output_callers

v0.1.0 - Amazing Atomium

Initial release of nf-cmgg/structural, created with the nf-core template.

This is a beta release of the pipeline so this pipeline is not perfect yet. Please open up an issue if you encounter any bugs or have any suggestions on how to improve the pipeline!