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multiqc flagstat report table

bugSomething isn't workingSomething isn't working

Status: Open.

#1653 In nf-core/rnaseq;

· ggrimes opened on Dec 8, 2025

Gene counts contain transcript-level data when using multiple --gtf_extra_attributes values

Status: Open.

#1652 In nf-core/rnaseq;

· pinin4fjords opened on Dec 8, 2025

Update MultiQC module to v1.33 when released

Status: Open.

#1646 In nf-core/rnaseq;

· pinin4fjords opened on Dec 4, 2025

New Module: Sylph

enhancement

Status: Open.

#1615 In nf-core/rnaseq;

· egreenberg7 opened on Oct 29, 2025

Improvements for processing prokaryotic datasets using the nf-core/rnaseq pipeline

enhancement

Status: Open.

#1512 In nf-core/rnaseq;

· sebschulz1 opened on Mar 12, 2025

Update StringTie to latest version

enhancement

Status: Open.

#1506 In nf-core/rnaseq;

· rrdavis77 opened on Feb 14, 2025

salmon seems to remove transcripts

Status: Open.

#1500 In nf-core/rnaseq;

· jedi-bogate opened on Jan 31, 2025

ERROR Not able to pull image of ('biocontainers/bioconductor-tximeta:1.20.1--r43hdfd78af_0')

bugSomething isn't workingSomething isn't working

Status: Open.

#1457 In nf-core/rnaseq;

· ilariarossoni opened on Nov 26, 2024

Remove need for use of Seqera conda channels

enhancement

Status: Open.

#1431 In nf-core/rnaseq;

· pinin4fjords opened on Oct 23, 2024

3.16.x does not allow numeric sample ids

bugSomething isn't workingSomething isn't working

Status: Open.

#1419 In nf-core/rnaseq;

· idot opened on Oct 17, 2024

Restore the set -C when the concerned modules are fixed

Status: Open.

#1404 In nf-core/rnaseq;

· maxulysse opened on Oct 10, 2024

SortMeRNA database version

enhancement

Status: Open.

#1354 In nf-core/rnaseq;

· wzheng0520 opened on Aug 16, 2024

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3.23.0