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Prepare reference before run pipeline

bugSomething isn't workingSomething isn't working

Status: Open.

#2072 In nf-core/sarek;

· kcuong0503 opened on Dec 9, 2025

Module compilation error (bam_variant_calling_somatic_muse)

bugSomething isn't workingSomething isn't working

Status: Open.

#2070 In nf-core/sarek;

· rdistefano opened on Dec 8, 2025

Typo - umi_in_read_header cannot be string

Status: Open.

#2068 In nf-core/sarek;

· sminot opened on Dec 5, 2025

Detected join operation duplicate emission on right channel

bugSomething isn't workingSomething isn't working

Status: Open.

#2064 In nf-core/sarek;

· amizeranschi opened on Dec 2, 2025

Proper use of parameters

Status: Open.

#2061 In nf-core/sarek;

· mletexier-cnrgh opened on Nov 26, 2025

Inquiry about integrating Octopus variant caller into Sarek

enhancementNew feature or requestNew feature or request

Status: Open.

#2056 In nf-core/sarek;

· alkhatib93 opened on Nov 17, 2025

Validation of pipeline parameters failed!

bugSomething isn't workingSomething isn't working

Status: Open.

#2050 In nf-core/sarek;

· aszabo08 opened on Nov 10, 2025

How to skip rerunning tasks that have already been completed when using the -resume parameter?

bugSomething isn't workingSomething isn't working

Status: Open.

#2042 In nf-core/sarek;

· lihuacao007 opened on Oct 30, 2025

401 Unauthorized error from Singularity gatk

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#2040 In nf-core/sarek;

· cakirb opened on Oct 23, 2025

·  

3.7

Bug Report — Join mismatch when using mutect2 tool

bugSomething isn't workingSomething isn't working

Status: Open.

#2036 In nf-core/sarek;

· monigenomi opened on Oct 21, 2025

No automatic email recieved after successful completion of pipeline in Sarek ver. 3.6.0

bugSomething isn't workingSomething isn't working

Status: Open.

#2034 In nf-core/sarek;

· bmaxim7 opened on Oct 17, 2025

varlociraptor issues

Status: Open.

Bug

#2030 In nf-core/sarek;

· famosab opened on Oct 16, 2025

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3.7