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Kraken2: add option for "--use-daemon" with the k2 wrapper

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#673 In nf-core/taxprofiler;

· Laurenz0908 opened on Nov 27, 2025

I'm not quite sure what the tutorial output is supposed to be

Status: Open.

#671 In nf-core/taxprofiler;

· gailrosen opened on Nov 26, 2025

Request for a KrakenUniq + Bracken + Krona workflow

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#669 In nf-core/taxprofiler;

· pcantalupo opened on Nov 21, 2025

Feature: Option to output ready TSE -object

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#663 In nf-core/taxprofiler;

· raivo-otus opened on Nov 11, 2025

Bowtie2 "find" process fails to read symlinks when mounted in CIFS

bugSomething isn't workingSomething isn't working

Status: Open.

#652 In nf-core/taxprofiler;

· sghuete opened on Sep 23, 2025

New classifer: centrifuger

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#647 In nf-core/taxprofiler;

· jfy133 opened on Sep 11, 2025

Deactivate the publishing of unmapped bam files

bugSomething isn't workingSomething isn't working

Status: Open.

#644 In nf-core/taxprofiler;

· sofstam opened on Aug 29, 2025

Providing a combined report for estimated counts table for Metaphlan

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#638 In nf-core/taxprofiler;

· apalleja opened on Aug 26, 2025

SAM files (*.sam.bz2) as optional output of MetaPhlAn for subsequent StrainPhlAn analysis

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#634 In nf-core/taxprofiler;

· mr2raccoon opened on Aug 20, 2025

New profiler: singleM

Status: Open.

#626 In nf-core/taxprofiler;

· jfy133 opened on Jul 18, 2025

Add snapshot for default pipeline nf-test

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#618 In nf-core/taxprofiler;

· sofstam opened on Jun 11, 2025

Provide custom script for merging MetaPhlAn tables for better sample name handling

enhancementImprovement for existing functionalityImprovement for existing functionality

Status: Open.

#574 In nf-core/taxprofiler;

· alexhbnr opened on Jan 30, 2025