Hello, I would like to align the Clariom D probes against the newest reference genome and transcriptome with the eventual aim to develop a custom CDF file, it is more straight forward with the HTA2 chip. However, there is no Clariom D fasta file.

I use bwa to align the HTA2 against the reference genome and transcriptome, to generate a bam file. What would the equivalent step for Clariom D?