How to load custom non-model species genome

[ckuanglim85]

Hello,
I have some CAGE sequencing data from oil palm. The reads were mapped to the genome. I have alignment BAM file, and converted into BigWig. I have problem running quantifyCTSSs because I couldn't define the genome parameter. How can I load this custom non-model species genome and use CAGEfightR?
Thanks in advance.

[MalteThodberg]

Have you tried running if with genome = NULL? Then it tries to use the BigWig-files to figure out the genome.

Alternatively you can manually build the Seqinfo object needed for the the genome argument. See the ?Seqinfo from the GenomeInfoDb package on how to do this!