Galaxy |

Bandage Image (version 2022.09+galaxy4)

Graphical Fragment Assembly:

Supports multiple assembly graph formats: LastGraph (Velvet), FASTG (SPAdes), Trinity.fasta, ASQG and GFA.

Image height:

If only height or width is set, the other will be determined automatically. If both are set, the image will be exactly that size. Default: 1000.

Image width:

If only height or width is set, the other will be determined automatically. If both are set, the image will be exactly that size. Default: not set.

Node name labels?:

Node length labels?:

Font size:

Node font size?

Node width:

Node width for graph image?

Produce jpg, png or svg file?:

THE NEW BANDAGE: As of version 2022.09, the Bandage tool is now built on `Bandage-NG <https://github.com/asl/BandageNG>`_. This fork of the original Bandage is better maintained with additional features and performance upgrades.

Bandage Overview

Bandage is a GUI program that allows users to interact with the assembly graphs made by de novo assemblers such as Velvet, SPAdes, MEGAHIT and others. De novo assembly graphs contain not only assembled contigs but also the connections between those contigs, which were previously not easily accessible. Bandage visualises assembly graphs, with connections, using graph layout algorithms. Nodes in the drawn graph, which represent contigs, can be automatically labelled with their ID, length or depth. Users can interact with the graph by moving, labelling and colouring nodes. Sequence information can also be extracted directly from the graph viewer. By displaying connections between contigs, Bandage opens up new possibilities for analysing and improving de novo assemblies that are not possible by looking at contigs alone.

Bandage works with Graphical Fragment Assembly (GFA) files. For more information about this file format, see here

Command Documentation

Bandage image will generate an image file of the graph visualisation.