Hub needs chromAlias files or at least some way to find a chromosome.

[maximilianh]

From the UCSC-GB mailing list:

Hello,

Thank you for sending your follow-up inquiry.

Unfortunately, we do not maintain the HG002 assembly hub, so we cannot make any changes. Benedict Paten's lab maintains the hub at UCSC, and you can contact Marina Haukness ([email protected]) to request setting up a chromAlias file to search for chromosome names like "chr7":

https://genomewiki.ucsc.edu/index.php?title=Chrom_Alias

I hope this is helpful. If you have any further questions, please reply to [email protected].
All messages sent to that address are archived on a publicly accessible Google Groups forum.
If your question includes sensitive data, you may send it instead to [email protected].

Jairo Navarro

UCSC Genome Browser

On Fri, Mar 3, 2023 at 10:30 AM Sky Gomez <[email protected]> wrote:
I would be interested in upcoming workshops or live training. I've been watching the youtube videos but it doesn't answer my question.

I am trying to upload the HG002 map from the Pangenome project so I can look at specific chromosome ends. Through the Pangenome website, I was able to find HG002 on the Genome browser but when I type "ch7" for example it provides an error message or how-to-tutorials. Do you know what I'm doing wrong or who I could possibly ask?
Screenshot 2023-03-03 102407.png

Thank you for your time and help!
-Sky Gomez

[diekhans]

markd idea: chr1_ncbiacc
Jeltje idea: chr1_a where a,b,c order them