Reference

All functions
F_H(<SEIR>)	Size of human population
F_H(<SIR>)	Size of human population
F_H(<garki>)	Size of effective infectious human population
F_X(<SEIR>)	Size of effective infectious human population
F_X(<SIR>)	Size of effective infectious human population
F_X(<garki>)	Size of effective infectious human population
F_b(<SEIR>)	Infection blocking pre-erythrocytic immunity
F_b(<SIR>)	Infection blocking pre-erythrocytic immunity
F_b(<garki>)	Infection blocking pre-erythrocytic immunity
F_eggs(<RMG>)	Number of eggs laid by adult mosquitoes
F_fqM(<RMG>)	Blood feeding rate of the infective mosquito population
F_fqZ(<RMG>)	Blood feeding rate of the infective mosquito population
F_pr(<SEIR>)	Compute the "true" prevalence of infection / parasite rate
F_pr(<SIR>)	Compute the "true" prevalence of infection / parasite rate
F_pr(<garki>)	Compute the "true" prevalence of infection / parasite rate
HTC(<SEIR>)	Compute the HTC for the SEIR model
HTC(<SIR>)	Compute the HTC for the SIR model
HTC(<garki>)	Compute the HTC for the garki model
MBionomics(<RMG>)	Reset bloodfeeding and mortality rates to baseline
dMYZdt(<RMG>)	Derivatives for adult mosquitoes
dXdt(<SEIR>)	Derivatives for human population
dXdt(<SIR>)	Derivatives for human population
dXdt(<garki>)	Derivatives for human population
get_inits_MYZ(<RMG>)	Return initial values as a vector
get_inits_X(<SEIR>)	Return initial values as a vector
get_inits_X(<SIR>)	Return initial values as a vector
get_inits_X(<garki>)	Return initial values as a vector for the Garki model
make_MYZinits_RMG()	Make inits for RMG adult mosquito model
make_MYZpar_RMG()	Make parameters for RM ODE adult mosquito model
make_Xinits_SEIR()	Make initial values for the SEIR human model, with defaults
make_Xinits_SIR()	Make initial values for the SIR human model, with defaults
make_Xinits_garki()	Make inits for Garki human model. Note that the variables should sum up to H, so the initial value of x1 is not set. The values are passed in the same order as they are presented in the original paper.
make_Xpar_SEIR()	Make parameters for SEIR human model, with defaults
make_Xpar_SIR()	Make parameters for SIR human model, with defaults
make_Xpar_garki()	Make parameters for Garki human model
make_indices_MYZ(<RMG>)	Add indices for adult mosquitoes to parameter list
make_indices_X(<SEIR>)	Add indices for human population to parameter list
make_indices_X(<SIR>)	Add indices for human population to parameter list
make_indices_X(<garki>)	Add indices for human population to parameter list
make_inits_MYZ_RMG()	Make inits for RMG adult mosquito model
make_parameters_MYZ_RMG()	Make parameters for RMG ODE adult mosquito model
parse_deout_MYZ(<RMG>)	Parse the output of deSolve and return variables for the RMG model
parse_deout_X(<SEIR>)	Parse the output of deSolve and return variables for the SEIR model
parse_deout_X(<SIR>)	Parse the output of deSolve and return variables for the SIR model
parse_deout_X(<garki>)	Parse the output of deSolve and return variables for the Garki model
setup_MYZinits(<RMG>)	Setup initial values for the RMG model
setup_MYZpar(<RMG>)	Setup MYZpar for the RMG model
setup_Xinits(<SEIR>)	Setup Xinits.SEIR
setup_Xinits(<SIR>)	Setup Xinits.SIR
setup_Xinits(<garki>)	Setup Xinits.garki
setup_Xpar(<SEIR>)	Setup Xpar.SEIR
setup_Xpar(<SIR>)	Setup Xpar.SIR
setup_Xpar(<garki>)	Setup Xpar.garki
split_stratum_by_biting(<SIS>)	Split a stratum into two strata, assigning a fraction `p` a new biting weight that is multiplied by a factor `fac` compared with the old one. The biting weight for the remaining `1-p` gets a new factor `1/fac`
update_inits_MYZ(<RMG>)	Make inits for RMG adult mosquito model
update_inits_X(<SEIR>)	Update inits for the SEIR human model from a vector of states
update_inits_X(<SIR>)	Update inits for the SIR human model from a vector of states
update_inits_X(<garki>)	Update Xinits for the Garki model
xde_lines_X_SEIR()	Add lines for the density of infected individuals for the SEIR model
xde_lines_X_SIR()	Add lines for the density of infected individuals for the SIR model
xde_lines_X_garki()	Add lines for the density of infected individuals for the Garki model
xde_plot_X(<SEIR>)	Plot the density of infected individuals for the SEIR model
xde_plot_X(<SIR>)	Plot the density of infected individuals for the SIR model
xde_plot_X(<garki>)	Plot the density of infected individuals for the Garki model