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GiuntaLab / RPE1

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annotation of centromere #2

Open human-geno opened 3 months ago

human-geno commented 3 months ago

Hi,

I am a bioinformatics student and came across your article. By following the methods, I could generate Stv annotations using Stv tool but I do not understand how to generate the which mer makes per chromosomes ex: from Fig2d chrX is made of 12-mer while other chromosomes has multiple colors showing different mers from these Stv results.

Thank you

GiuntaLab commented 1 week ago

Hi, sorry for the delay - after the output, you can find the two columns with the genomic coordinates and then the third column is suprafamilies annotation that says how many monomers are in the live HORs. Let mw know if you have more questions.