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samtools not indexing in csi

bugSomething isn't workingSomething isn't working

Status: Open.

#217 In nf-core/rnavar;

· altuffin opened on Jul 11, 2025

GATK4_MERGEVCFS not sorted

bugSomething isn't workingSomething isn't working

Status: Open.

#214 In nf-core/rnavar;

· yannic-chen opened on Jul 7, 2025

Adding a field for custom params for STAR

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#207 In nf-core/rnavar;

· genomaxx opened on May 3, 2025

Add minimap2

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#205 In nf-core/rnavar;

· maxulysse opened on Apr 20, 2025

Adding support for somatic variant calling (MuTect2)

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#204 In nf-core/rnavar;

· amizeranschi opened on Apr 10, 2025

Variant annotation VEP plugins

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#189 In nf-core/rnavar;

· leurwu opened on Mar 6, 2025

· 

1.2.0

Add samtools markdup for UMI aware markdup

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#181 In nf-core/rnavar;

· matthdsm opened on Mar 3, 2025

· 

1.2.0

Thoughts on submitting RNAVar to a journal?

questionFurther information is requestedFurther information is requested

Status: Open.

#147 In nf-core/rnavar;

· Shaun-Regenbaum opened on Jun 26, 2024

· 

1.2.0

Add samtools mpileup as an alternative variant caller

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#110 In nf-core/rnavar;

· Leon-Bichmann opened on Nov 28, 2023

· 

1.2.0

Add <code>trimming</code> step

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#96 In nf-core/rnavar;

· bounlu opened on Aug 15, 2023

· 

1.2.0

Single cell somatic mutations

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#77 In nf-core/rnavar;

· cutleraging opened on Nov 22, 2022

· 

1.2.0

Optional filter out RNA editing variants

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#63 In nf-core/rnavar;

· ojziff opened on Jun 29, 2022

· 

1.2.0