Adding custom genomes doesn't work for non-Chr naming

[ChangxuFan]

The human genome is organized into chromosomes (chr1, chr2, ... etc), but viral and bacterial genomes are not. Therefore, there is no "chr" naming for these genomes. Attached is an illustration of the browser breaking when attempting to upload a SARS-CoV-2 genome.

Also for human genomes, only scaffolded genomes have chr naming: most genomes from HPRC don't have chromosomes either since they are on the contig level.

Screen.Recording.2025-03-20.at.8.01.12.AM.mp4

[lidaof]

@ChangxuFan this is a great point! We will work on this.

[nh-codem]

@ChangxuFan Hi, Could you show me how to build a custom genome JSON configuration using the genome sequence (GCA_000364345.1) and GTF annotation file downloaded from UCSC?

[ChangxuFan]

@ChangxuFan Hi, Could you show me how to build a custom genome JSON configuration using the genome sequence (GCA_000364345.1) and GTF annotation file downloaded from UCSC?

I will look into this.