Call 5mc methylation in Pacbio revio platform

Question

[yh]

Hey guys, i 'm now trying to call 5mc probability from Pacbio revio ccs.bam, but i failed. i find the hifi-kinetic signal in revio ccs.bam, but i can not use pbmm2 map the methyaltion signal to reference genome, which is different from pacbio seqII platform. Is there anyway to call the 5mc probability from pacbio revio platform

Answer 1

[inedraylig]

Hello,

this question is rather confusing. Are you trying to predict 5mc methylations, map methylation to a reference genome, or do both? The current pipeline offered by PacBio is Jasmine:

https://github.com/PacificBiosciences/jasmine

You may want to read through their recommended pipeline and follow that, as a start.