assemble your own karyotype file

Question

[cdwilliam524]

Hello,

Could anyone tell me how I could assemble my own karyotype file for circos plot? I am working on a bacteria project. The species is called Candidatus Kuenenia stuttgartiensis, which belongs to phylum/Clade Planctomycetes. I could not find the data from stuttgartiensis in UCSC table. I googled Ca. K stuttgartiensis's genome as well but found nothing. I combined all the contigs from this source and use it as the reference genome.

I have finished mapping through bwa, formatting through Samtools and merging overlapping sequences and generating coverage report through BEDTools.

Thanks in advance!

Will

[The Last Word]

got anything? I am stuck on the same thing. Converting a FASTA to a karyotype file