How to keep original order of contigs? #12
Description
Hi,
Thank you for making this tool. I've corrected the contig orientation and generated plots using FicChr; however my contigs are out of order.
This is a species1areference vs species1bquery
All chromosomes are arranged from ch1-ch24 in the original .fasta files, both before and after orientation fixing. Is there a way to correct this?
In the instructions it mentions an .agp file-- I do not have this for my assemblies (is there a tool out there which generates this?), or is there an easier way to correct this?
