marbl/MetagenomeScope

Issues

• Update DOT parser to optionally allow edge IDs in labels

  #246 opened 6 months ago by fedarko
  0

• Adjust max node / max edge counts to consider the top layer of the decomposed graph

  #245 opened 2 years ago by fedarko
  0

• Checklist of existing features to rewire back in

  #181 opened 4 years ago by fedarko
  0

• Alternate, more intuitive representation of duplicate bubble boundary nodes

  #206 opened 4 years ago by fedarko
  0

• Identify cyclic frayed ropes?

  #242 opened 2 years ago by fedarko
  0

• Identifying cyclic bubbles?

  #241 opened 2 years ago by fedarko
  1

• Better component tiling

  #223 opened 3 years ago by fedarko
  0

• Support general node / edge metadata

  #243 opened 2 years ago by fedarko
  0

• Support showing extra metadata (length, coverage, etc.) in node / edge labels

  #207 opened 4 years ago by fedarko
  0

• Documenting gaps in AGP scaffolds

  #212 opened 3 years ago by fedarko
  0

• Detect paths encoded in GFA files and pass to user interface

  #208 opened 2 years ago by fedarko
  1

• Pass extra GFA segment / link attributes (tags) to the visualization

  #238 opened 2 years ago by fedarko
  0

• New type of pattern: bipartite subgraphs

  #222 opened 3 years ago by fedarko
  1

• Prevent long node labels from extending past pattern boundaries

  #220 opened 3 years ago by fedarko
  0

• Support duplicate (aka parallel) edges in GFA / FASTG files?

  #239 opened 2 years ago by fedarko
  0

• Draw arrowheads in both directions for self-implying edges

  #240 opened 2 years ago by fedarko
  0

• Compress main.js more

  #237 opened 2 years ago by fedarko
  0

• [Feature Request] Output a graph file that could be used elsewhere (e.g., NetworkX, iGraph, or Cytoscape)

  #234 opened 3 years ago by jolespin
  4

• Configurable segment / "node" shapes

  #211 opened 3 years ago by fedarko
  1

• Update CI

  #214 opened 3 years ago by fedarko
  0

• Thicken duplicate edges

  #231 opened 3 years ago by fedarko
  1

• Allow searching to return complements if needed

  #230 opened 3 years ago by fedarko
  0

• Pass PATTERN2COLOR from Python to JS?

  #228 opened 3 years ago by fedarko
  0

• Change the "chain" color to something more neutral

  #221 opened 3 years ago by fedarko
  1

• Blurry exported screenshots

  #226 opened 3 years ago by fedarko
  1

• Automatically cropping screenshots

  #227 opened 3 years ago by fedarko
  1

• Allow chains to be used as boundary nodes of bubbles

  #201 opened 4 years ago by fedarko
  1

• Add "select all" option

  #225 opened 3 years ago by fedarko
  0

• Aggregate some statistics in node / edge tables

  #224 opened 3 years ago by fedarko
  0

• Better selected node/edge/pattern info tables

  #219 opened 3 years ago by fedarko
  0

• Make selected element info tables horizontally scrollable

  #196 opened 4 years ago by fedarko
  0

• Sanity check with various assemblers' output

  #216 opened 3 years ago by fedarko
  0

• Corner-case AGP visualization bugs

  #213 opened 3 years ago by fedarko
  0

• Label offsets

  #210 opened 3 years ago by fedarko
  0

• Circularized semilinear layout

  #209 opened 3 years ago by fedarko
  0

• Centralize data storage in the Python codebase

  #204 opened 4 years ago by fedarko
  0

• Need to set up decomposed graph as a MultiDiGraph

  #202 opened 4 years ago by fedarko
  1

• Explicitly handle/test duplicate edges in the decomposed graph

  #187 opened 4 years ago by fedarko
  0

• Disallow frayed ropes from being used in other types of patterns in the decomposition

  #200 opened 4 years ago by fedarko
  0

• Clean up coordinate rotation / conversion code + fix inaccuracies in component tiling

  #198 opened 4 years ago by fedarko
  0

• Fix component tiling

  #191 opened 4 years ago by fedarko
  0

• If a node/edge lacks data for a given field, say "N/A" in the selected info table

  #192 opened 4 years ago by fedarko
  0

• Look into Graphviz clusterrank options

  #195 opened 4 years ago by fedarko
  0

• also add commas to printed message about too-large components

  #189 opened 4 years ago by fedarko
  0

• If all nodes / edges lack data for an "extra" field, don't include that field in the JSON export

  #190 opened 4 years ago by fedarko
  0

• Based on total number of nodes/edges in graph, update control panel text when drawing all components

  #188 opened 4 years ago by fedarko
  0

• Set up on pip / conda-forge

  #185 opened 4 years ago by fedarko
  0

• Add "no labels?" as an option for the image exporting section

  #184 opened 4 years ago by fedarko
  0

• Travis build fails

  #179 opened 4 years ago by fedarko
  0

• Ensure that node names don't contain leading/trailing whitespace or commas, and do contain non-whitespace characters

  #180 opened 4 years ago by fedarko
  0