The Frontline Support team will be slow to respond December 17-18 due to an institute-wide retreat and offline December 22- January 1, while the institute is closed. Thank you for your patience during these next few weeks. Happy Holidays!
Call variant from RNA-Seq data using Haplotypecaller
My understanding is that Haplotypecaller is specifically designed to call variant from DNA-Seq data. However, RNA-Seq has different (more complicated) allele frequency. How comes that Haplotypecaller is still being used in RNA-Seq variant calling pipeline? Can anyone share some information on this question? Really appreciated