search

marbl / CHM13

The complete sequence of a human genome
Other
883 stars 96 forks source link

CHM13 cytoband positions for building an ideogram #47

Closed mike-molnar closed 2 years ago

mike-molnar commented 2 years ago

Hello,

Thanks for all your great work in building the CHM13 assembly! I would like to plot some of my results of v2.0 using karyoploteR, and I am able to build a custom ideogram, but I cannot find a file with the positions of the cytobands. I see the centromere and telomere files for v1.1 on the UCSC table browser, but I was wondering if there is a BED file with all of the cytoband positions?

Thanks, Mike

diekhans commented 2 years ago

Hi Mike,

I put the V2.0 cytoband BED here:

http://t2t.gi.ucsc.edu/chm13/hub/t2t-chm13-v2.0/download/chm13v2.0_cytobands_allchrs.bed.gz

Mark

mike-molnar commented 2 years ago

Hi Mark,

Awesome! Thanks for the quick reply.

Mike

hhuili commented 1 year ago

Hi Mike, I put the V2.0 cytoband BED here: http://t2t.gi.ucsc.edu/chm13/hub/t2t-chm13-v2.0/download/chm13v2.0_cytobands_allchrs.bed.gz Mark

Hi Diekhans,

The link is broken, can you provide it again?

Thanks a lot ! Huihui Li

diekhans commented 1 year ago

Apologies, the link broke as part of reorganizing around moving to UCSC. This link should work again:

http://t2t.gi.ucsc.edu/chm13/hub/t2t-chm13-v2.0/download/chm13v2.0_cytobands_allchrs.bed.gz