using scHLAcount for bulk RNA-seq

10XGenomics / scHLAcount

Count HLA alleles in single-cell RNA-seq data

MIT License

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using scHLAcount for bulk RNA-seq #7

Closed Puputnik closed 5 years ago

Puputnik commented 5 years ago

Hi!

I really like the way your tool works, and I was wondering if it was possible to use somehow your tool with bulk RNA-seq data (aligned with STAR) for HLA allele specific expression estimation.

thank you very much in advance!

cdarby commented 5 years ago

scHLAcount leverages cell and molecule level information specific to single-cell data. We suggest you try out other tools available in the literature AltHapAlignR https://github.com/jknightlab/AltHapAlignR HLApers https://github.com/genevol-usp/HLApers which are both designed for bulk RNA-seq data.