Issues

• --webincli_mode validate will include study and co assembly sample regsitration

  bug
  nf-core/seqsubmit#118 · Filter by author ochkalova opened on Oct 19, 2026

• MultiQC skips assembly metadata table for co-assemblies (comma in quoted Runs field)

  bug
  nf-core/seqsubmit#115 · Filter by author ochkalova opened on Oct 16, 2026

• Long-read end-to-end submission

  enhancement
  nf-core/seqsubmit#110 · Filter by author Vkale1 opened on Oct 16, 2026
  

• Allow single contig genomes to be submitted as chromosomes for long-reads

  enhancement
  nf-core/seqsubmit#109 · Filter by author Vkale1 opened on Oct 16, 2026
  

• Allow BAM as input for long-reads submission

  enhancement
  nf-core/seqsubmit#98 · Filter by author Vkale1 opened on Aug 28, 2026
  

• Refactoring of FIND_CONCATENATE usage: replace with collectFile() operator

  enhancement
  nf-core/seqsubmit#97 · Filter by author ochkalova opened on Aug 27, 2026

• Support submission of MAGs/bins generated from co-assemblies

  enhancementgenome_submit
  nf-core/seqsubmit#96 · Filter by author ochkalova opened on Aug 27, 2026

• Non-mandatory feilds support

  enhancement
  nf-core/seqsubmit#89 · Filter by author KateSakharova opened on Jul 23, 2026

• Submission of a MAG/bin without submitting the assembly or raw reads

  enhancement
  nf-core/seqsubmit#87 · Filter by author ochkalova opened on Jul 10, 2026

• Add tests for --is_private flag for different kinds of data

  enhancement
  nf-core/seqsubmit#80 · Filter by author ochkalova opened on Jul 2, 2026

• Add READS assigned_accessions table into multiqc.report

  enhancementread_submit
  nf-core/seqsubmit#70 · Filter by author KateSakharova opened on Jun 4, 2026

• Add ENA_VALIDATE_CREDENTIALS module

  enhancement
  nf-core/seqsubmit#65 · Filter by author ochkalova opened on May 13, 2026

• Add viral sequence submission support

  enhancement
  nf-core/seqsubmit#63 · Filter by author KateSakharova opened on May 7, 2026

• Support submission of metagenomic assemblies generated from co-assemblies

  assembly_submitenhancement
  nf-core/seqsubmit#61 · Filter by author KateSakharova opened on May 6, 2026
  1

  

• Improve --centre_name and --upload_tpa arguments usage

  assembly_submitenhancementgenome_submit
  nf-core/seqsubmit#57 · Filter by author ochkalova opened on Apr 29, 2026
  

• Implement chunking

  enhancement
  nf-core/seqsubmit#55 · Filter by author KateSakharova opened on Apr 24, 2026

• Add human contamination removal optional step

  enhancement
  nf-core/seqsubmit#51 · Filter by author KateSakharova opened on Apr 15, 2026

• Add eukaryotic MAGs/bins support

  enhancementeukaryotes
  nf-core/seqsubmit#40 · Filter by author KateSakharova opened on Mar 19, 2026
  

• Accept assembly submissions for raw-reads not submitted to ENA

  assembly_submitenhancement
  nf-core/seqsubmit#29 · Filter by author KateSakharova opened on Feb 19, 2026

• Write a nf-core/mag samplesheet generator for nf-core/seqsubmit

  enhancement
  Enhancement

  nf-core/seqsubmit#6 · Filter by author KateSakharova opened on Oct 24, 2025

• Write nf-test for ena-webin-cli

  enhancement
  Task

  nf-core/seqsubmit#5 · Filter by author KateSakharova opened on Oct 24, 2025