Request for Sus Scrofa genome

[jsa...@gmail.com]

Hello, 

Can you please add a Sus Scrofa genome (Sscrofa11.1/susScr11) to IGV? I don't see this one in v2.7.2. The website for a fasta and annotation file is below:

https://www.ncbi.nlm.nih.gov/assembly/GCF_000003025.6/

I have tried to create the .genome file, but I get chromosome names starting with NCs (e.g., NC_010443.5) and long blue bars above transcripts in the gene window (e.g., bars indicating a certain chromosome, region, or gene. Please see attached picture). So, it may be better to ask you to replace NCs with Chr numbers and find out options for removing those long bars.  

Thanks, 

Jinsoo

[James Robinson]

Hi, what you have there is exactly what you would see if we host it.  We do not customize annotations.  If you want to customize the annotation you can use tools like grep to remove annotations you don't want to see.

As a side comment, it is not necessary to create a ".genome" file unless you want to host it for other people, you can just load the fasta as the "genome" and the annotations from the file menu.

--

---
You received this message because you are subscribed to the Google Groups "igv-help" group.
To unsubscribe from this group and stop receiving emails from it, send an email to igv-help+u...@googlegroups.com.
To view this discussion on the web visit https://groups.google.com/d/msgid/igv-help/9de4b1a5-6944-42fa-bc49-1ac9afdf30cc%40googlegroups.com.