affectors
Class DecayRegUpAff

java.lang.Object
  affectors.Affector
      affectors.DecayRegUpAff

All Implemented Interfaces:

java.lang.Cloneable

public class DecayRegUpAff

extends Affector

Use this for decay of a Node when the decay rate can be raised (half life lowered) by the presence of another node. Use this for both intracellular and extracellular nodes.

Formula
dnodex/dt = -nodex * (1 / [H_nodex - (H_nodex - min_life) * (DECAYER^nu / (K^nu + DECAYER^nu))])

Parameters

(tr>

Target [nodex]	The Node which is decaying
Inhibitor [DECAYER]	The Node that increases decay.
Half-life [H_nodex]	The half-life of the Node absent the decayer.
Half-max decayer [K_DECAYERnodex]	The decayer concentration at which decay rate is increased by half maximum increase.
Cooperativity decayer [nu_DECAYERnodex]	The non-linearity of the decayer function.
Min half-life [min_life]	The minimum half life reached when decayer is at max concentration.

Usage
&nodex

&DecayRegUpAff nodex decayer H_nodex K_decayer_nodex nu_decayer_nodex min_life

&endnodex

Field Summary

Fields inherited from class affectors.Affector

ADesc, affectorType, CC, CERTIFICATION, CONVERSION, copyNumber, DEGRADATION, FF, firstFreeParam, GG, GUI_CAPABLE, HH, KK, MATHTYPE, NDesc, PDesc, PRODUCTION, RETURNS_DERIV, RETURNS_PARTIALS, TERMTYPE, TT, Type, UNSPECIFIED

Constructor Summary

DecayRegUpAff()

Method Summary

float	getNCValue(Node which_node)
float	getValue(Node which_node)
protected void	setLabelsAndTypes()
void	setParameterNumbers(int[] param_nums)

Methods inherited from class affectors.Affector

addDefaultParam, Chi, clearStatic, copy_, copy, doesContainTarget, findOrCreateParam, findParam, fixNodes, getNodes, getNumNodes, getNumParameters, getOtherSide, getParameter, getParameter, getParamName, getParamPos, getParamValue, getParamValue, getParamVariationMode, init, isLinearInTarget, Phi, Psi, setContainsTarget, setDescriptions, setParameter, setParamRange, setParamRange, setParamValue, setParamValue, setSide, setSided

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

DecayRegUpAff

public DecayRegUpAff()

Method Detail

setLabelsAndTypes

protected void setLabelsAndTypes()

Specified by:

setLabelsAndTypes in class Affector

setParameterNumbers

public void setParameterNumbers(int[] param_nums)

Specified by:

setParameterNumbers in class Affector

getValue

public float getValue(Node which_node)

Overrides:

getValue in class Affector

getNCValue

public float getNCValue(Node which_node)

Overrides:

getNCValue in class Affector