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Reintegrate <code>QC_WORKFLOW</code> subworkflow into pipeline after migration to nf-core/subworkflows

Status: Open.

#755 In nf-core/rnafusion;

· atrigila opened on Aug 26, 2025

Reintegrate <code>FUSIONINSPECTOR</code> subworkflow into pipeline after migration to <code>nf-core/subworkflows</code>

Status: Open.

#754 In nf-core/rnafusion;

· atrigila opened on Aug 26, 2025

Replace <code>GENCODE_DOWNLOAD</code> for nf-core <code>WGET</code>

Status: Open.

Enhancement

#739 In nf-core/rnafusion;

· atrigila opened on Aug 8, 2025

ctatsplicing reference building triggering

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#704 In nf-core/rnafusion;

· rannick opened on Jul 10, 2025

Replace <code>HGNC_HGNC</code> module with nf-core <code>WGET</code> module

on hold

Status: Open.

Enhancement

#700 In nf-core/rnafusion;

· atrigila opened on Jul 4, 2025

Gencode release 48

feature-requestNew feature or requestNew feature or request

Status: Open.

Enhancement

#690 In nf-core/rnafusion;

· tkcaccia opened on Jul 2, 2025

CTATSPLICING module fails due to lack of clear support for CancerSplicingLib indexing inside container

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#681 In nf-core/rnafusion;

· tkcaccia opened on Jun 18, 2025

vcf output is not created if no fusions are found

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#673 In nf-core/rnafusion;

· mschubert opened on May 20, 2025

Consolidate <code>gtftogenepred</code> modules

refactor

Status: Open.

Enhancement

#666 In nf-core/rnafusion;

· atrigila opened on May 5, 2025

Missing StringTie output in fusionreport pdf

documentation

Status: Open.

Task

#631 In nf-core/rnafusion;

· tlaguna opened on Mar 14, 2025

Create nf-test for STARFUSION_DETECT using a junction file as input

Status: Open.

Task

#593 In nf-core/rnafusion;

· rannick opened on Dec 19, 2024

Move local modules to nf-core/modules

Status: Open.

Enhancement

#575 In nf-core/rnafusion;

· grst opened on Dec 6, 2024