Disclaimer for methylation call maximum methylation depth of 8000

[villars4]

I just would like to advocate for either:

1. a prominent disclaimer stating that the default maximum depth used during methylation calling can create misleading methylation calls.
2. removing this maximum depth default parameter

All the best,
Severiano

[guoweilong]

Thanks for your suggestion. Actually, the data structure implemented in C language has the limitation for ~8000 (8192-1). For most site, the coverage should be very low (<100). Maybe for plastid genome or repeat regions, you may find some position with coverage exceeding the maximum limitation. For these cases, I suggest users to be careful with the result, or to write custom codes. Best, Weilong At 2021-03-03 00:53:26, "villars4" <notifications@github.com> wrote: I just would like to advocate for either: a prominent disclaimer stating that the default maximum depth used during methylation calling can create misleading methylation calls. removing this maximum depth default parameter All the best, Severiano — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or unsubscribe.