Issues

• MetaPhlAn convert SGB profiles to GTDB taxonomy

  enhancement
  nf-core/taxprofiler#777 · Filter by author jason-m-norman opened on Oct 2, 2026
  1

• Empty analysis_ready_fastqs folder

  bug
  nf-core/taxprofiler#775 · Filter by author ikarls opened on Sep 24, 2026
  3

  

• Kmask classifier

  enhancement
  nf-core/taxprofiler#773 · Filter by author sofstam opened on Sep 24, 2026

• Add number of reads in analysis ready fastq's

  enhancement
  nf-core/taxprofiler#770 · Filter by author hkaspersen opened on Sep 14, 2026

• New Profiler: Protal

  enhancement
  nf-core/taxprofiler#765 · Filter by author nickp60 opened on Aug 10, 2026

• Add PanTax

  enhancement
  nf-core/taxprofiler#745 · Filter by author aidaanva opened on May 27, 2026

• MetaPhlAn requires huge amounts of RAM when running with long reads

  bug
  nf-core/taxprofiler#744 · Filter by author jfy133 opened on May 14, 2026 · 3.0.0 - Dystopic Doberman
  1

• Add an option for BAM input

  enhancement
  nf-core/taxprofiler#743 · Filter by author oneillkza opened on May 13, 2026
  1

• Database file column db_name allows repeated entries bvut should not

  bug
  nf-core/taxprofiler#742 · Filter by author d4straub opened on May 6, 2026 · 3.0.0 - Dystopic Doberman
  3

  

• Minor nf-core/tools post-merge tasks

  enhancement
  nf-core/taxprofiler#740 · Filter by author jfy133 opened on Apr 28, 2026

• Missing taxids in centrifuge.results.txt

  bug
  nf-core/taxprofiler#722 · Filter by author LilyAnderssonLee opened on Apr 7, 2026 · 3.0.0 - Dystopic Doberman

• Fastp content in test_falcobbduk.nf.test.snap is empty

  bug
  nf-core/taxprofiler#717 · Filter by author sofstam opened on Apr 3, 2026 · 3.0.0 - Dystopic Doberman

• New classifier: GuaCAMOLE

  enhancement
  nf-core/taxprofiler#680 · Filter by author fgp opened on Jan 27, 2026
  1

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

  enhancement
  nf-core/taxprofiler#673 · Filter by author Laurenz0908 opened on Nov 27, 2025
  1

• Request for a KrakenUniq + Bracken + Krona workflow

  enhancement
  nf-core/taxprofiler#669 · Filter by author pcantalupo opened on Nov 21, 2025
  1

• Feature: Option to output ready TSE -object

  enhancement
  nf-core/taxprofiler#663 · Filter by author raivo-otus opened on Nov 11, 2025 · 3.1.0 - Extravagant Estrela
  1

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

  bug
  nf-core/taxprofiler#652 · Filter by author sghuete opened on Sep 23, 2025 · 3.0.0 - Dystopic Doberman
  17

• Providing a combined report for estimated counts table for Metaphlan

  enhancement
  nf-core/taxprofiler#638 · Filter by author apalleja opened on Aug 26, 2025 · 3.0.0 - Dystopic Doberman
  6

• New profiler: singleM

  nf-core/taxprofiler#626 · Filter by author jfy133 opened on Jul 18, 2025
  

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

  enhancement
  nf-core/taxprofiler#574 · Filter by author alexhbnr opened on Jan 30, 2025 · 3.0.0 - Dystopic Doberman
  4

• Add option for BBTools Clumpify optical deduplication

  enhancementquestion
  nf-core/taxprofiler#547 · Filter by author funnell opened on Oct 22, 2024 · 3.0.0 - Dystopic Doberman
  2

• Create a samplesheet for mag

  enhancement
  nf-core/taxprofiler#542 · Filter by author sofstam opened on Oct 10, 2024
  

• Create samplesheets for differentialabundance

  enhancement
  nf-core/taxprofiler#541 · Filter by author LilyAnderssonLee opened on Oct 10, 2024
  

• Add the interactive visualisation tool GRIMER

  enhancement
  nf-core/taxprofiler#516 · Filter by author LilyAnderssonLee opened on Aug 19, 2024 · 3.1.0 - Extravagant Estrela
  1

• Have checks that if sub-parameter activate but main parameter not, error or give warning

  enhancement
  nf-core/taxprofiler#513 · Filter by author jfy133 opened on Aug 8, 2024