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Update kinetic_scheme.md
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kenatcampbellmusclelab committed Apr 2, 2024
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Expand Up @@ -211,14 +211,14 @@ For more details, and additional transition types, see the function [`transition

| Type | Parameters (in order) | Equation |
| --- | --- | --- |
| constant | a | rate = a |
| force_dependent | a, b | rate = a + ( b * force at node) |
| poly | a, b, c | rate = a + ( b * x^c) |
| gaussian | a, b | rate = a * exp((-0.5 * b * k_cb) / (k_B * T)) |
| constant | a | $$ rate = a $$ |
| force_dependent | a, b | $$ rate = a + ( b * force\ at\ node) $$ |
| poly | a, b, c | $$ rate = a + ( b . x^c) $$ |
| gaussian | a, b | $$ rate = a . e^{\frac{b.k_{cb}.x^2}{2.k_B.T}} $$|
| | | b is optional, and set to 1 if not provided |
| gaussian_hsl | a, b | same as `gaussian` except that the rate increases with half-sarcomere length due to the filaments being pushed closer together |
| gaussian_pc | a, b | rate = a * exp((-0.5 * alpha) / (k_B * T)) |
| | | b is optional. If it is provided, alpha = b. If not, alpha = stiffness of MyBP-C |
| exp_wall | a, b, c, d | rate = a * exp(-(k_cb * (x + x_ext) * b) / (k_B * T)) + (max_rate * (1 / (1 + exp(-c * (x-d))))) |
| gaussian_pc | a, b | $$ rate = a . e^{\frac{\alpha x^2}{2 . k_B . T}} $$ |
| | | b is optional. If it is provided, $$ \alpha $$ = b. If not, alpha = stiffness of MyBP-C |
| exp_wall | a, b, c, d | $$ rate = a .e^{\frac{k_{cb}.(x + x_{ps}).b}{k_B . T}} + \frac{max \ rate}{(1 + e^{-d . (x-c)})} $$
| | | This produces a rate that increases exponentially as the link is pulled in the direction of shortening, but increases very rapidly if the head is stretch beyond d |

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