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marbl / CHM13

The complete sequence of a human genome
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how to obtain chain information from any two assemblies(liftover) #48

Closed zhoudreames closed 2 years ago

zhoudreames commented 2 years ago

I want to use my assembled genome to liftover reference genome, how to do it? thanks ~

diekhans commented 2 years ago

liftover files for V1.1 are in http://t2t.gi.ucsc.edu/chm13/hub/t2t-chm13-v1.1/downloads/

V2.0 is not available yet

zhoudreames commented 2 years ago

liftover files for V1.1 are in http://t2t.gi.ucsc.edu/chm13/hub/t2t-chm13-v1.1/downloads/

V2.0 is not available yet

thanks for your reply, can I make the leftover files by myself? i want to obtain the chain files from my assembled genome. how to do it ? thanks again~

skoren commented 2 years ago

This question doesn't seem specific/relevant to CHM13. Are you're just interested in how to build a new chain file? This wiki has some information: http://genomewiki.ucsc.edu/index.php/LiftOver_Howto and there's more guides if you just google for how to build chain files.