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A library for working with phylogenetic and population genetic data.
v0.32.0 |
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A library for working with phylogenetic and population genetic data.
v0.32.0 |
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#include "genesis/population/genome_locus.hpp"#include "genesis/sequence/sequence_dict.hpp"#include "genesis/utils/math/common.hpp"#include <cassert>#include <cstring>#include <iostream>#include <memory>#include <string>#include <stdexcept>Go to the source code of this file.
Namespaces | |
| genesis | |
| Container namespace for all symbols of genesis in order to keep them separate when used as a library. | |
| genesis::population | |
Macros | |
| #define | ADD_LOCUS_COMPARISON_OVERLOADS(CMP_FUNC) |
Functions | |
| int | locus_compare (GenomeLocus const &l, GenomeLocus const &r) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (GenomeLocus const &l, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (GenomeLocus const &l, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, genesis::sequence::SequenceDict const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, ::genesis::sequence::SequenceDict const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| int | locus_compare (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Three-way comparison (spaceship operator <=>) for two loci in a genome. More... | |
| bool | locus_equal (GenomeLocus const &l, GenomeLocus const &r) |
Equality comparison (==) for two loci in a genome. More... | |
| bool | locus_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Equality comparison (==) for two loci in a genome. More... | |
| bool | locus_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Equality comparison (==) for two loci in a genome. More... | |
| bool | locus_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Equality comparison (==) for two loci in a genome. More... | |
| int | locus_greater (GenomeLocus const &l, GenomeLocus const &r) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (GenomeLocus const &l, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (GenomeLocus const &l, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, genesis::sequence::SequenceDict const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| bool | locus_greater (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Greater than comparison (>) for two loci in a genome. More... | |
| bool | locus_greater (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, ::genesis::sequence::SequenceDict const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than comparison (>) for two loci in a genome. More... | |
| int | locus_greater_or_equal (GenomeLocus const &l, GenomeLocus const &r) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (GenomeLocus const &l, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (GenomeLocus const &l, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, genesis::sequence::SequenceDict const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| bool | locus_greater_or_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| bool | locus_greater_or_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, ::genesis::sequence::SequenceDict const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| int | locus_greater_or_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| bool | locus_inequal (GenomeLocus const &l, GenomeLocus const &r) |
Inequality comparison (!=) for two loci in a genome. More... | |
| bool | locus_inequal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Inequality comparison (!=) for two loci in a genome. More... | |
| bool | locus_inequal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Inequality comparison (!=) for two loci in a genome. More... | |
| bool | locus_inequal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Inequality comparison (!=) for two loci in a genome. More... | |
| int | locus_less (GenomeLocus const &l, GenomeLocus const &r) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (GenomeLocus const &l, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (GenomeLocus const &l, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, genesis::sequence::SequenceDict const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| bool | locus_less (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Less than comparison (<) for two loci in a genome. More... | |
| bool | locus_less (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, ::genesis::sequence::SequenceDict const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than comparison (<) for two loci in a genome. More... | |
| int | locus_less_or_equal (GenomeLocus const &l, GenomeLocus const &r) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (GenomeLocus const &l, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (GenomeLocus const &l, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, genesis::sequence::SequenceDict const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (GenomeLocus const &l, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, genesis::sequence::SequenceDict const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (std::string const &l_chromosome, size_t l_position, GenomeLocus const &r, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| bool | locus_less_or_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| bool | locus_less_or_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, ::genesis::sequence::SequenceDict const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| int | locus_less_or_equal (std::string const &l_chromosome, size_t l_position, std::string const &r_chromosome, size_t r_position, std::shared_ptr< genesis::sequence::SequenceDict > const &sequence_dict) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| bool | operator!= (GenomeLocus const &l, GenomeLocus const &r) |
Inequality comparison (!=) for two loci in a genome. More... | |
| bool | operator< (GenomeLocus const &l, GenomeLocus const &r) |
Less than comparison (<) for two loci in a genome. More... | |
| std::ostream & | operator<< (std::ostream &os, GenomeLocus const &locus) |
| bool | operator<= (GenomeLocus const &l, GenomeLocus const &r) |
Less than or equal comparison (<=) for two loci in a genome. More... | |
| bool | operator== (GenomeLocus const &l, GenomeLocus const &r) |
Equality comparison (==) for two loci in a genome. More... | |
| bool | operator> (GenomeLocus const &l, GenomeLocus const &r) |
Greater than comparison (>) for two loci in a genome. More... | |
| bool | operator>= (GenomeLocus const &l, GenomeLocus const &r) |
Greater than or equal comparison (>=) for two loci in a genome. More... | |
| std::string | to_string (GenomeLocus const &locus) |
| #define ADD_LOCUS_COMPARISON_OVERLOADS | ( | CMP_FUNC | ) |
Definition at line 90 of file function/genome_locus.hpp.
1.8.17