single cell RNA sequencing about arcashla

[IoanFilip2]

Thank you for using our tool. Please see a few previous threads already regarding single-cell seq. What are you trying to accomplish with arcasHLA on single-cell RNAseq?

[MySelvan]

I have fastq files (in the form of I1, R1 and R2) from ScRNA-seq and would like to identify the HLA-genotype. Would it be appropriate to run arcasHLA using the fastq file (only R2 with the sequence)? Are any pre-processing required before running arcasHLA or should I be aware of any caveats of the HLA genotypes identified from ScRNA-Seq?
I checked the previous threads and it was mentioned arcasHLA performance will be tested and benchmarked with scRNA-seq data. Could you please let me know how was the performance from such analysis?

[tpereachamblee]

Thank you for using our tool. Please see the explanation provided in issue #49