Issues

• No fasta input implemented?

  bug
  nf-core/phageannotator#129 · Filter by author Sarani-NS opened on Jun 12, 2025

• iPHOP downloads the wrong database for its current version

  bug
  nf-core/phageannotator#127 · Filter by author harper357 opened on May 1, 2025

• Running geNomad and COBRA fails because of altered FASTA sequence name

  bug
  nf-core/phageannotator#125 · Filter by author harper357 opened on Apr 25, 2025

• COBRA options schema are listed as strings when they should be ints

  bug
  nf-core/phageannotator#123 · Filter by author harper357 opened on Apr 24, 2025
  1

• Add prophage tracer to predict prophage activity

  nf-core/phageannotator#113 · Filter by author CarsonJM opened on Apr 18, 2024

• Replace mash screen with sylph

  nf-core/phageannotator#112 · Filter by author CarsonJM opened on Apr 18, 2024

• Replace BLAST with skani for ani clustering

  nf-core/phageannotator#111 · Filter by author CarsonJM opened on Apr 18, 2024

• Add clustering with Inphared to assign ICTV taxonomy

  nf-core/phageannotator#105 · Filter by author CarsonJM opened on Mar 20, 2024

• Add viralFlye to nf-core phageannotator

  nf-core/phageannotator#104 · Filter by author lborcard opened on Mar 18, 2024

• Prepare phageannotator for first release

  nf-core/phageannotator#103 · Filter by author CarsonJM opened on Mar 16, 2024

• Update nf-core/phageannotator nf-test structure to match fetchngs

  nf-core/phageannotator#94 · Filter by author CarsonJM opened on Feb 19, 2024
  

• Update nf-tests so full modules are only run in module tests

  nf-core/phageannotator#93 · Filter by author CarsonJM opened on Feb 15, 2024
  1

• Add ability to start nf-core/phageannotator with fastq only, fasta only, or a combination of both

  enhancement
  nf-core/phageannotator#90 · Filter by author CarsonJM opened on Feb 6, 2024
  

• Add phanta to nf-core/phageannotator

  nf-core/phageannotator#87 · Filter by author CarsonJM opened on Jan 22, 2024

• Add vRhyme to nf-core/phageannotator

  nf-core/phageannotator#85 · Filter by author CarsonJM opened on Jan 18, 2024

• Add genus/family-level clustering to nf-core/phageannotator

  nf-core/phageannotator#84 · Filter by author CarsonJM opened on Jan 11, 2024

• Update nf-core/phageannotator local modules/subworkflows

  nf-core/phageannotator#83 · Filter by author CarsonJM opened on Jan 2, 2024
  

• Auto generate nf-core/differentialabundance samplesheet using nf-core/phageannotator

  nf-core/phageannotator#76 · Filter by author CarsonJM opened on Dec 15, 2023

• Auto generate nf-core/funscan samplesheet using nf-core/phageannotator

  nf-core/phageannotator#75 · Filter by author CarsonJM opened on Dec 15, 2023

• Auto generate nf-core/mag samplesheet using nf-core/taxprofiler

  nf-core/phageannotator#74 · Filter by author CarsonJM opened on Dec 15, 2023

• Auto generate nf-core/mag samplesheet using nf-core/fetchngs

  nf-core/phageannotator#73 · Filter by author CarsonJM opened on Dec 15, 2023

• Add phanta to nf-core/taxprofiler

  nf-core/phageannotator#72 · Filter by author CarsonJM opened on Dec 15, 2023

• Add phanta to nf-core/modules

  nf-core/phageannotator#71 · Filter by author CarsonJM opened on Dec 15, 2023

• Add phanta to nf-core/taxprofiler

  nf-core/phageannotator#70 · Filter by author CarsonJM opened on Dec 15, 2023

• Add VirSorter2 to nf-core/phageannotator

  nf-core/phageannotator#69 · Filter by author CarsonJM opened on Dec 15, 2023