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cdw / multifil

Multifilament half-sarcomere model
MIT License
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Calcium activation with calcium transient #2

Open general-rishkin opened 1 year ago

general-rishkin commented 1 year ago
  1. How would one go about adding calcium activation?
  2. How would one go about using a pre-recorded calcium transient over a time period?
cdw commented 1 year ago

Hey hey,

Actin permissiveness is an analog for calcium activation. In setting this you are combining Tn/Tm interactions into a single variable. To use a pre-recorded Ca profile you'd set actin permissiveness to different values across the length of a run.

Take a look at the metafile creation which manages these things for you in a run, or set them manually by accessing individual instances of hs.thin[x].binding_sites[y].permissiveness.

general-rishkin commented 1 year ago

That is good to know. I will try this. If I have any problems, I will let you know. Thanks. Great library too by the way.

general-rishkin commented 1 year ago

Hi I have just had time to turn my attention back to this again. I was able to set the permissiveness on the sites to an arbitrary value using hs.thin[x].binding_sites[y].permissiveness. So, I know I can use a sequence of values from the pre-recorded Ca profile across a run. (1) Would this be correct?

However, I am unsure how with a pre-recorded Ca profile I would set each of the following for the actin_permissiveness workloop using the metafile: cycle frequency, phase relative to longest length point, duration of on time, time from 10 to 90% influx level, and the half-life of the Ca2+ out-pumping.

Could you provide some explanation. Many thanks.