Excuse me. You program can take consider the coverage information? about nanosim

[cheny19]

Hi,

First, you need to calculate the size of the genome you are trying to simulate, which is the sum of 10 contigs in your case. Then 10X coverage means on average, each based is covered 10 times, so 10 * genome size is the total number of bases you want to simulate. Suppose the average length of your training reads is x, then you will probably need total number of bases / x reads. Hope that helps. Please keep in mind that if the contig length is shorter than the average training read length, you probably won't get the coverage you need.

Thanks,
Chen

[harisankarsadasivan]

when the length of reference in simulation is smaller than the template used for training, we configure the max_len parameter right? In this case, should the x in the above formula be replaced with the max_len value?

[cheny19]

The x here is the average read length, not max_len. But if your max_len and min_len range is very different from the training set, it should be changed accordingly.