_back_mutation_rate | TProtoDeletMutations_bitstring | private |
_chrsmLength | TTProtoWithMap | protected |
_continuous_effects | TProtoDeletMutations_bitstring | private |
_dist_p1 | TProtoDeletMutations_bitstring | private |
_dist_p2 | TProtoDeletMutations_bitstring | private |
_dominance | TProtoDeletMutations_bitstring | private |
_dominance_model | TProtoDeletMutations_bitstring | private |
_effects | TProtoDeletMutations_bitstring | private |
_fitness_model | TProtoDeletMutations_bitstring | private |
_fitness_scaling_factor | TProtoDeletMutations_bitstring | private |
_index | TraitPrototype | protected |
_inherit_func_ptr | TProtoDeletMutations_bitstring | private |
_init_freq | TProtoDeletMutations_bitstring | private |
_isRegistered | TTProtoWithMap | private |
_lociMapPositions | TTProtoWithMap | protected |
_map | TTProtoWithMap | static |
_mapIndex | TTProtoWithMap | protected |
_mapResolution | TTProtoWithMap | protected |
_mut_rate | TProtoDeletMutations_bitstring | private |
_mutation_model | TProtoDeletMutations_bitstring | private |
_nb_locus | TProtoDeletMutations_bitstring | private |
_numChromosome | TTProtoWithMap | protected |
_numLoci | TTProtoWithMap | protected |
_numLociPerChrmsm | TTProtoWithMap | protected |
_paramPrefix | TTProtoWithMap | private |
_paramSet | SimComponent | protected |
_reader | TProtoDeletMutations_bitstring | private |
_recombRate | TTProtoWithMap | protected |
_recombRatePerChrmsm | TTProtoWithMap | protected |
_set_effects_func | TProtoDeletMutations_bitstring | private |
_stats | TProtoDeletMutations_bitstring | private |
_strength | TProtoDeletMutations_bitstring | private |
_totRecombEventsMean | TTProtoWithMap | protected |
_viability_func_ptr | TProtoDeletMutations_bitstring | private |
_writer | TProtoDeletMutations_bitstring | private |
add_parameter(Param *param) | SimComponent | inlinevirtual |
add_parameter(std::string Name, param_t Type, bool isRequired, bool isBounded, double low_bnd, double up_bnd) | SimComponent | inlinevirtual |
add_parameter(std::string Name, param_t Type, bool isRequired, bool isBounded, double low_bnd, double up_bnd, ParamUpdaterBase *updater) | SimComponent | inlinevirtual |
addGeneticMapParameters(string prefix) | TTProtoWithMap | |
areGeneticMapParamSet(string prefix) | TTProtoWithMap | |
clone() | TProtoDeletMutations_bitstring | inlinevirtual |
get_backmutation_rate() | TProtoDeletMutations_bitstring | inline |
get_dominance() | TProtoDeletMutations_bitstring | inline |
get_dominance_model() | TProtoDeletMutations_bitstring | inline |
get_effect(unsigned int at, unsigned int loc) | TProtoDeletMutations_bitstring | inline |
get_effects() const | TProtoDeletMutations_bitstring | inline |
get_fitness_scaling_factor() | TProtoDeletMutations_bitstring | inline |
get_hs_continous() | TProtoDeletMutations_bitstring | inline |
get_index() | TraitPrototype | inlinevirtual |
get_init_freq() | TProtoDeletMutations_bitstring | inline |
get_iscontinuous() | TProtoDeletMutations_bitstring | inline |
get_mut_rate() | TProtoDeletMutations_bitstring | inline |
get_name() | SimComponent | inlinevirtual |
get_nb_locus() | TProtoDeletMutations_bitstring | inline |
get_parameter(std::string name) | SimComponent | inlinevirtual |
get_parameter_value(std::string name) | SimComponent | inlinevirtual |
get_paramset() | SimComponent | inlinevirtual |
get_s_continous() | TProtoDeletMutations_bitstring | inline |
get_strength() | TProtoDeletMutations_bitstring | inline |
get_type() const | TProtoDeletMutations_bitstring | inlinevirtual |
getMapIndex() | TTProtoWithMap | inline |
has_parameter(std::string name) | SimComponent | inlinevirtual |
hatch() | TProtoDeletMutations_bitstring | virtual |
inherit_free(sex_t SEX, bitstring *seq, bitstring **parent) | TProtoDeletMutations_bitstring | inline |
inherit_low(sex_t SEX, bitstring *seq, bitstring **parent) | TProtoDeletMutations_bitstring | inline |
init() | TProtoDeletMutations_bitstring | inlinevirtual |
isRecombinationFree(string prefix) | TTProtoWithMap | |
loadFileServices(FileServices *loader) | TProtoDeletMutations_bitstring | virtual |
loadStatServices(StatServices *loader) | TProtoDeletMutations_bitstring | virtual |
loadUpdaters(UpdaterServices *loader) | SimComponent | inlinevirtual |
recombine(unsigned long indID) | TTProtoWithMap | static |
recordRandomMap() | TTProtoWithMap | |
registerGeneticMap() | TTProtoWithMap | |
reset() | TProtoDeletMutations_bitstring | inlinevirtual |
reset_effect_table() | TProtoDeletMutations_bitstring | |
reset_recombination_pointers() | TTProtoWithMap | |
resetParameterFromSource(std::string param, SimComponent *cmpt) | TProtoDeletMutations_bitstring | virtual |
retrieve_data(BinaryStorageBuffer *reader) | TProtoDeletMutations_bitstring | virtual |
set_effect(unsigned int at, unsigned int loc, float val) | TProtoDeletMutations_bitstring | inline |
set_effects() | TProtoDeletMutations_bitstring | |
set_effects_exp() | TProtoDeletMutations_bitstring | inline |
set_effects_gamma() | TProtoDeletMutations_bitstring | inline |
set_effects_lognorm() | TProtoDeletMutations_bitstring | inline |
set_index(int idx) | TraitPrototype | inlinevirtual |
set_paramset(ParamSet *paramset) | SimComponent | inlinevirtual |
set_paramset(std::string name, bool required, SimComponent *owner) | SimComponent | inlinevirtual |
set_paramsetFromCopy(const ParamSet &PSet) | SimComponent | inlinevirtual |
setEffectsFromInput() | TProtoDeletMutations_bitstring | |
setGeneticMapParameters(string prefix) | TTProtoWithMap | |
setMapIndex(unsigned int idx) | TTProtoWithMap | inline |
setNumLociPerChromosome(string param_name) | TTProtoWithMap | |
setParameters() | TProtoDeletMutations_bitstring | virtual |
setRecombinationMapFixed() | TTProtoWithMap | |
setRecombinationMapNonRandom(vector< vector< double > > *lociPositions) | TTProtoWithMap | |
setRecombinationMapRandom() | TTProtoWithMap | |
setSelectionParameters() | TProtoDeletMutations_bitstring | |
SimComponent() | SimComponent | inline |
store_data(BinaryStorageBuffer *saver) | TProtoDeletMutations_bitstring | virtual |
TProtoDeletMutations_bitstring() | TProtoDeletMutations_bitstring | |
TProtoDeletMutations_bitstring(const TProtoDeletMutations_bitstring &T) | TProtoDeletMutations_bitstring | |
TTProtoWithMap() | TTProtoWithMap | inline |
TTProtoWithMap(const TTProtoWithMap &TP) | TTProtoWithMap | |
unregisterFromGeneticMap() | TTProtoWithMap | |
write_effects_to_parameter() | TProtoDeletMutations_bitstring | |
~SimComponent() | SimComponent | inlinevirtual |
~StorableComponent() | StorableComponent | inlinevirtual |
~TProtoDeletMutations_bitstring() | TProtoDeletMutations_bitstring | |
~TTProtoWithMap() | TTProtoWithMap | virtual |