how to simulate genomes with multiple types of variants

[zhoudreames]

I want to simulate genomes with SNP, Indel, and SV simultaneously, how to do it, or is there any pipeline to do it ? thanks~

[yjx1217]

Hi zhoudreames,

You can first simulate SNPs and INDELs (which can be simulated simultaneously), and then use the output genome to simulate SV afterwards. It was noting that during the INDEL simulation will change the genome coordinates (although not much) of the simulated genome relative to the original one. So keeps in mind when if you want to compare the absolute coordinate of SVs relative to the original input genome.

Best, Jia-Xing

[zhoudreames]

Thanks~