Colouring Contigs

Contigs can be coloured according to GC content, GC Skew, AT Skew, Coverage or user provided colours. Contigs are coloured purple if the selected value is equal to or under the minimum value or red if the colour is equal to or more than the maximum value, contigs with a value in between the minimum and maximum value are coloured on a gradient from purple to red. Minimum and maximum values can be changed from the colour options menu under tools.

Custom colours and values

Custom colours and values may be loaded. To load a file select “Load Custom” from the “Tools” menu and select a file with the custom values. The file should be in a tab delimited format with the first column being full contig names, the second column containing the custom value for the corresponding contig and the third column containing hex colour codes.

e.g.

node_8_length_10123_cov_52.121 20 #FF1C28
node_9_length_32191_cov_24.121 30 #12FF28
node_10_length_1021_cov_100.111 40 #12311C