Issues

• Fancy dot plot export functionality

  assemblersfeature-priority-1seq
  marbl/MetagenomeScope#491 · Filter by author fedarko opened on Oct 14, 2026

• Support extracting sequences from assembly graph filetypes that already "include" sequences

  assemblersfeature-priority-1seq
  marbl/MetagenomeScope#490 · Filter by author fedarko opened on Oct 8, 2026

• Support edge sequences in the input FASTA

  assemblersfeature-priority-1seq
  marbl/MetagenomeScope#489 · Filter by author fedarko opened on Oct 8, 2026

• Add the ability to get sequences from the graph

  feature-priority-1seq
  marbl/MetagenomeScope#488 · Filter by author fedarko opened on Oct 8, 2026

• Dot plots: "swap" button

  feature-priority-1seq
  marbl/MetagenomeScope#487 · Filter by author fedarko opened on Oct 8, 2026

• Dot plots: paths and grids

  feature-priority-2seq
  marbl/MetagenomeScope#486 · Filter by author fedarko opened on Oct 7, 2026

• Dot plots: support slicing an input sequence

  feature-priority-1seq
  marbl/MetagenomeScope#485 · Filter by author fedarko opened on Oct 7, 2026

• Dot plots: support stretching the aspect ratio when sequences are very different in length

  feature-priority-1seq
  marbl/MetagenomeScope#483 · Filter by author fedarko opened on Oct 7, 2026

• Support custom color tags from GFA files

  assemblersfeature-priority-1style
  marbl/MetagenomeScope#480 · Filter by author fedarko opened on Sep 10, 2026

• When drawing a decoupled component, detect unnecessary split nodes and merge them back together

  decompositionfeature-priority-2performancerefactoringstyle
  marbl/MetagenomeScope#479 · Filter by author fedarko opened on Sep 10, 2026

• When the "currently drawn" text gets really long, hide it (or at least collapse it, etc) by default

  feature-priority-1refactoringstyle
  marbl/MetagenomeScope#478 · Filter by author fedarko opened on Aug 25, 2026

• Update README screenshots and documentation

  documentation
  marbl/MetagenomeScope#476 · Filter by author fedarko opened on Aug 20, 2026 · Next release (v1.4.0)

• Describe repeats in paths better in the toast message

  assemblerstables
  marbl/MetagenomeScope#475 · Filter by author fedarko opened on Aug 18, 2026

• Now that we support log scales for the coverage / length scatterplots, detect zeroes (or negative values...?) and show warning next to plots

  assemblersexternalfeature-priority-2info-dialog
  marbl/MetagenomeScope#474 · Filter by author fedarko opened on Aug 18, 2026 · Next release (v1.4.0)

• Allow the RC of a node or edge to count as "available" for a path

  assemblersfeature-priority-2refactoringtables
  marbl/MetagenomeScope#472 · Filter by author fedarko opened on Aug 17, 2026

• Upgrade to new Cytoscape.js; make wheel sensitivity configurable?

  assemblersexternalperformancequestiontesting
  marbl/MetagenomeScope#471 · Filter by author fedarko opened on Aug 11, 2026

• Require that the input graph is symmetric (at least for decoupling)?

  assemblersfeature-priority-1questionrefactoring
  marbl/MetagenomeScope#468 · Filter by author fedarko opened on Aug 5, 2026

• Replace big dcc.Stores with more sophisticated caches

  externalfutureideasperformancerefactoring
  marbl/MetagenomeScope#467 · Filter by author fedarko opened on Aug 4, 2026

• In log_layout_start(), don't list settings whose checkboxes are checked but disabled

  documentationfeature-priority-1layoutrefactoring
  marbl/MetagenomeScope#466 · Filter by author fedarko opened on Aug 3, 2026

• Show gene annotations (e.g. a GFF file) on the graph

  assemblersfeature-priority-2refactoring
  marbl/MetagenomeScope#464 · Filter by author fedarko opened on Jul 8, 2026

• "Repeat array" pattern type

  assemblersdecompositionfeature-priority-2futureideaslayoutrefactoring
  marbl/MetagenomeScope#463 · Filter by author fedarko opened on Jul 8, 2026

• Custom edge routing

  decompositionexternalfutureideaslayoutrefactoring
  marbl/MetagenomeScope#462 · Filter by author fedarko opened on Jul 8, 2026

• Adapt decoupling to recursive layout

  feature-priority-1layoutrefactoring
  marbl/MetagenomeScope#460 · Filter by author fedarko opened on Jul 6, 2026

• Adapt decoupling to drawing "around nodes"

  feature-priority-1refactoring
  marbl/MetagenomeScope#459 · Filter by author fedarko opened on Jul 6, 2026

• Showing "invalidated patterns" in decoupled components

  decompositionfeature-priority-1refactoring
  marbl/MetagenomeScope#458 · Filter by author fedarko opened on Jul 2, 2026