Issues

• CI workflow is stale: pinned to Nextflow 23.10.1, manual-trigger only

  Eco-Flow/excon#148 · Filter by author chriswyatt1 opened on Sep 19, 2026

• CAFE further statistics wish list

  Eco-Flow/excon#147 · Filter by author chriswyatt1 opened on Sep 16, 2026

• Allow flexibility in "single copy" ortholog retention

  Eco-Flow/excon#146 · Filter by author chriswyatt1 opened on Sep 16, 2026

• Transposable element filtering

  Eco-Flow/excon#145 · Filter by author chriswyatt1 opened on Sep 16, 2026
  1

• KEGG support

  Eco-Flow/excon#144 · Filter by author chriswyatt1 opened on Sep 16, 2026
  1

• Enable BUSCO filtering

  Eco-Flow/excon#143 · Filter by author chriswyatt1 opened on Sep 16, 2026
  1

• Add iqtree3 support for fossil dated nodes

  Eco-Flow/excon#142 · Filter by author chriswyatt1 opened on Sep 16, 2026
  1

• Include Genome-Error model, proteins as input, offline mode?

  Eco-Flow/excon#140 · Filter by author desmodus1984 opened on Aug 4, 2026
  3

• Report on genome completeness alongside CAFE results

  suggestion
  Eco-Flow/excon#129 · Filter by author chriswyatt1 opened on Apr 9, 2026