Visualize where kmers are on a reference genome

Question

[Carrie]

Hello!

I have a reference genome and a kmer of 7. I ran the kmer and genome through seqkit locate to get all the locations of where the kmer binds to the genome in a text file. Is there a way I can now use this file, or the BED file that is also produced, to visually see where the kmers are binding to the genome?

[Ram]

Did you google "visualize BED file on genome"?

Answer 1

[Alex Reynolds]

Make a bigBed file: Convert a bed file to bigbed

Then view it on the UCSC Genome Browser: http://genome.ucsc.edu/goldenPath/help/customTrack.html#TRACK