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marbl / CHM13

The complete sequence of a human genome
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Questions about the source of T2T-CHM13 genetic map #96

Open lsaeric opened 7 months ago

lsaeric commented 7 months ago

I noticed that the T2T-CHM13 database does not list the genetic map for the T2T-CHM13 version. Is there any resource available to obtain the genetic map for the T2T-CHM13?

arangrhie commented 5 months ago

Hi @lsaeric , we have a cytoband annotation. Is this what you are looking for?

lsaeric commented 5 months ago

No, the genetic map I need is that can be used for calculating recombination rate.

Hi @lsaeric , we have a cytoband annotation. Is this what you are looking for?

arangrhie commented 5 months ago

Sorry, then I am not aware of it..! Do you have the genetic map for hg38? I could try lift that over to CHM13 if that'll be useful.

lsaeric commented 5 months ago

Sorry, then I am not aware of it..! Do you have the genetic map for hg38? I could try lift that over to CHM13 if that'll be useful.

Thank you, and you meant that there is not an available version of genetic map for T2T-CHM13 yet. Additionaly, the best approach to get the resource now is to liftover GRCh38 data to T2T-CHM13 coordinates?

arangrhie commented 5 months ago

Yes I am not aware of any genetic map for T2T-CHM13.

Additionaly, the best approach to get the resource now is to liftover GRCh38 data to T2T-CHM13 coordinates?

I believe so, although it may fall apart at some corner cases.