Circos is a visualization tool with unique applications to displaying assembly coverage information.

Implemented for KBase by Sean Jungbluth(sjungbluth@lbl.gov)

This method assumes that you have a method to generate a DNA assembly.

Configuration:

Assembly Object: The Assembly object is a collection of assembled genome fragments, called "contigs".

Reads Object: The raw reads used to produce the original assembly and to be used for assembly improvement.

Read Mapping Tool: The read mapping tool used for coverage assessment and generation of the Circos diagram.

Output:

Output Object: A KBase reports Object is output.

Downloadable files: The relevant output of the Circos run may be downloaded as a zip file. Contents include the clean sequence assembly files and Circos input/output files.

Circos diagram description: inner-most black circle represent assembly contigs, mapped read are visualized in the red/grey/green colored outside ring where red is 0x-5x, grey is 5x-10x, and green is 10x-[Max Coverage Detected].