Closed ssnn-airr closed 3 years ago
Original comment by Jason Vander Heiden (Bitbucket: javh, GitHub: javh).
Thanks @{5e674baa7075ba0cf83e0b22} !
No, it doesn’t work on bulk RNA-seq data and I don’t think there are any plans to add that functionality. If the bulk RNA-seq doesn’t require contig assembly (eg, 2x150 reads), then something could be cobbled together with presto. But, in that case I would still probably try MiXCR’s implementation first: https://mixcr.readthedocs.io/en/master/rnaseq.html
The next MiXCR release (v3.0.14) should have support for the AIRR Rearrangement standard, which will simplify plugging the output into the various immcantation tools.
This seems to be resolved. Reopen if needed.
Original report by Grigory Nos (Bitbucket: [Grigory Nos](https://bitbucket.org/Grigory Nos), ).
Dear Immcantation developers team!
Thanks a lot for this amazing software
I want to ask if Immcantation and Presto, in particular, can work with a common bulk RNA-seq library without any target enrichment of vdj genes?
If not, do you have any plans to make it?
Thanks a lot