I have 300+ trajectories and 20ns for each. I tried many different cluster numbers. Although, sometimes the plot of implied time scalses seems converged, I can not get a smooth curve. The curves are always very bumpy. And the more cluster I use, the more bumpier they get.

How that happen?

## why the plot implied time scale vs lag time is very bumpy?

- Robert McGibbon
**Posts:**20**Joined:**Tue Jul 19, 2011 9:25 am

### Re: why the plot implied time scale vs lag time is very bump

Junyan,

This is probably just statistical noise. The more clusters you have, the fewer number of transitions there are per pair of states, the the higher variance we should expect any statistical estimators to be.

Also, sorry for not checking this forum for a very long time. Please sign up for the msmbuilder-user email list, which will hopefully be a little more active than these forums. https://mailman.stanford.edu/mailman/li ... ilder-user

-Robert

This is probably just statistical noise. The more clusters you have, the fewer number of transitions there are per pair of states, the the higher variance we should expect any statistical estimators to be.

Also, sorry for not checking this forum for a very long time. Please sign up for the msmbuilder-user email list, which will hopefully be a little more active than these forums. https://mailman.stanford.edu/mailman/li ... ilder-user

-Robert

- web design
**Posts:**10**Joined:**Fri Aug 18, 2017 12:43 pm

### Re: why the plot implied time scale vs lag time is very bumpy?

Good information has been used