How can set "mutant_index" for gene fusions and then run antigen.garnish?

[Xiao-Zhong]

Hi Andrew,

I'm unsure if it's ok to fill the "mutant_index" column with "all", the fusion breakpoint or others?
These pep_mut are gene fusions predicted by EasyFuse.

"sample_id","pep_mut","mutant_index","MHC"
"fusions.pass.head100","DFFPRKPSRQRGSSDESWQTAATSRHVSPSNEESETGF","all","HLA-A24:02 HLA-A26:01 HLA-B55:01 HLA-C03:03"
"fusions.pass.head100","PFLLAYMPYCLPQPPLPPAAAHRWCRQWAVPSGRSLNPPSEPGLIL","all","HLA-A24:02 HLA-A26:01 HLA-B55:01 HLA-C03:03"

Thank you very much!
Xiao

[andrewrech]

I don't remember; give me a couple days to look at the code and I'll get back to you