1 #ifndef __SEQUENCE_COALESCENT_COALESCE_HPP__ 2 #define __SEQUENCE_COALESCENT_COALESCE_HPP__ 11 template<
typename uniform_generator>
12 std::pair<int,int> pick2_in_deme( uniform_generator & uni,
13 const std::vector<Sequence::coalsim::chromosome> & sample,
15 const int & deme_nsam,
18 template<
typename uniform_generator>
19 std::pair<int,int> pick2_in_deme(
const uniform_generator & uni,
20 const std::vector<Sequence::coalsim::chromosome> & sample,
22 const int & deme_nsam,
25 template<
typename uniform_generator>
26 std::pair<int,int> pick2( uniform_generator & uni,
const int & nsam);
28 template<
typename uniform_generator>
29 std::pair<int,int> pick2(
const uniform_generator & uni,
const int & nsam);
32 const int & pos,
unsigned * offset );
36 const int & current_nsam,
41 std::vector<chromosome> * sample,
42 arg * sample_history);
46 #include <Sequence/Coalescent/bits/Coalesce.tcc> std::list< marginal > arg
Ancestral Recombination Graph.
The namespace in which this library resides.
declaration of types for coalescent simulation
bool isseg(chromosome::const_iterator seg, const unsigned &nsegs, const int &pos, unsigned *offset)
ask if a chromosome beginning at seg and containing nsegs contains a segment containing the position ...
A portion of a recombining chromosome.
int coalesce(const double &time, const int &ttl_nsam, const int ¤t_nsam, const int &c1, const int &c2, const int &nsites, int *nlinks, std::vector< chromosome > *sample, arg *sample_history)
Common ancestor routine for coalescent simulation. Merges chromosome segments and updates marginal tr...