Annick Renevey

Stringtie

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## PR checklist - [ ] This comment contains a description of changes (with reason). - [x] If you've fixed a bug or added code that should be tested, add...

Fix arriba visualisation

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Work in progress ## PR checklist - [ ] This comment contains a description of changes (with reason). - [ ] If you've fixed a bug or added code that...

Release 3.0.2

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## PR checklist - [ ] This comment contains a description of changes (with reason). - [ ] If you've fixed a bug or added code that should be tested,...

### Description of feature How to use the new version of nf-validation? If you want to be prepared for the new version of nf-validation, this will use the latest version...

### Description of feature - [x] convert2bed - [x] fusioncatcher: keep local, test won't work - [x] fusioninspector: keep local, test won't work - [x] fusionreport: keep local, specific to...

// Check mandatory parameters // //TODO: move this to utils_nf_core_rnafusion_pipeline // if (file(params.input).exists() || params.build_references) { ch_input = file(params.input) } else { exit 1, 'Input samplesheet does not exist or...

### Description of feature New version is out, we need to update

Use references from CTAT

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### Description of feature Use references from CTAT. Allows to shorten reference building time and maybe call a few more fusions with STAR-fusion as it is optimised for this

### Description of feature Add support for GRCh37

### Description of feature Harmonise channel naming system: for example ch_ or no ch_