• Product manuals

Browse the manual

• Introduction
  • The concept of Long Read Support
  • Contact information
  • System requirements
• Template workflows
  • De Novo Assemble Long Reads and Polish with Short Reads
• Import Nanopore Reads
• De Novo Assemble Long Reads
  • De novo assembly parameters
  • De novo assembly output
• Map Long Reads to Reference
  • Map Long Reads to Reference output
• Polish with Reads
  • Polish with Reads output
• Correct Long Reads
  • Correct Long Reads output
• RNA-Seq Analysis for Long Reads
  • Reads and reference settings
  • Mapping settings
  • Expression settings
  • RNA-Seq Analysis for Long Reads output
• Structural Variant Caller for Long Reads
  • Structural Variant Caller settings
  • Structural Variant Caller output
  • Structural Variant Caller algorithm
• Install and uninstall plugins
  • Installation of plugins
  • Uninstalling plugins
• Bibliography

Assembly graph

Figure 4.1: Assembly graph view

The assembly graph provides visual representations of the sequences in the contig list, and sequences that were excluded.

The viewer shows a single graph component (group of connected sequences) at a time. You switch between them using the Side Panel Graph components dropdown. To exclude graphs composed of a single contig, select Hide single contigs.

Hover your mouse over the colored line of a contig to see the name and length of the contig at the lower right corner of the view.

Dragging a contig initiates a layout animation. The animation aims to adhere to a graph layout governed by a set of force-directed rules. Consequently, when a contig is moved in a specific direction, the algorithm will strives to return to a low-energy state.

---