Linear synteny view

Opening a linear synteny view

  1. Navigate on the header bar Add → Linear synteny view
  2. Select the genome assemblies of interest
  3. Optionally, add a .paf, .out (MashMap), .delta (Mummer), .chain, .anchors or .anchors.simple (MCScan) file
Screenshot of the import form of the synteny view. You can select two different assemblies and an additional file can be supplied.
Screenshot of the import form of the synteny view. You can select two different assemblies and an additional file can be supplied.
Screenshot showing the linear synteny view for the grape vs peach genome.
Screenshot showing the linear synteny view for the grape vs peach genome.

For a step-by-step walkthrough of loading assemblies, generating a PAF with minimap2, and using the dotplot and linear synteny views together, see the Synteny and genome alignment tutorial.