REMEDI algorithm

In the case of membrane proteins one distinguishes (1) the part that is present in the membrane and that mostly possesses the secondary structure of an a-helix and (2) the part that is outside of the membrane. This part is taken in all theoretical approaches as undefined structure although in reality it may possess the structure of an a-helix or P-strand equally to those in soluble proteins. But, because of the limited number of membrane proteins with known 3D structures, it is not possible to train the algorithm to predict the secondary structure for the soluble part of membrane proteins. Therefore, remedy algorithms for predicting the secondary structures of soluble proteins can be used. Among the available algorithms the most reliable is the PHD rnethod. ... 

The numerical aspect, and the lack of explicit velocities, in the Verlet algorithm can be remedied by the leap-frog algorithm. Performing expansions analogous to eqs. (16.28) and (16.29) with half a time step followed by subtraction gives... 

Dynamic Optimal Design of Groundwater Remediation Using Genetic Algorithms... 

Chang, L. C, Shoemaker, C. A., and Liu, P. L. F. (1992). "Optimal time-varying pumping rates for groundwater remediation Application of a constrained optimal control algorithm." Water Resour. Res., 28(12), 3157-3171. 

Rogers, L. L., Dowla, F. U., and Johnson, V. M. (1995). "Optimal field-scale groundwater remediation using neural networks and genetic algorithms." Environ. Sci. Technol., 29(5), 1145-1155. 

Chan Hilton, A., Aksoy, A., and Culver, T. B., (2000). Dynamic optimal design of groundwater remediation using genetic algorithms. in J. Smith and S. Bums (eds.), Remediation of Contaminated Subsurface Environments, Kluwer Academic, New York, NY. 

Unfortunately, this method of control does not solve any of the inherent problems of nonlinear, exothermic temperature control. But it does not prevent the use of any of the traditional remedies, such as adaptive gain, bidirectional gain, or anti-reset windup, since these are all modifications to the PID algorithm. 

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