Functions for Composite Likelihood Information Criterion. More...

#include "branchtab.h"
#include "hessian.h"
#include "misc.h"
#include "strdblqueue.h"
#include <math.h>
#include <stdbool.h>
#include <ctype.h>
#include <errno.h>

Functions
static int	is_sitepat (const char *s)
	Return 1 if string begins with '#', then any number of whitespace characters, then "SitePat". More...

StrDblQueue *	StrDblQueue_push (StrDblQueue self, const char str, double val)

StrDblQueue *	StrDblQueue_pop (StrDblQueue self, StrDbl strdbl)

int	StrDblQueue_length (StrDblQueue *self)

StrDblQueue *	StrDblQueue_free (StrDblQueue *self)

void	StrDblQueue_print (const StrDblQueue self, FILE fp)

int	StrDblQueue_compare (StrDblQueue lhs, StrDblQueue rhs)
	Compare the str fields in two StrDblQueue objects. More...

StrDblQueue *	StrDblQueue_parseLegofit (const char *fname, int freeonly)

StrDblQueue *	StrDblQueue_parseSitePat (const char *fname)
	Parse a data file as produced either by sitepat, tabpat, legosim, or legofit. More...

void	StrDblQueue_normalize (StrDblQueue *self)

double	StrDblQueue_msd (const StrDblQueue a, const StrDblQueue b)

void	checkConsistency (const char fname1, const char fname2, StrDblQueue q1, StrDblQueue q2)

void	make_covar_matrix (int nfiles, int npar, double array[nfiles][npar], gsl_matrix *cov)

Detailed Description

Functions for Composite Likelihood Information Criterion.

Author: Daniel R. Tabin and Alan R. Rogers

Copyright: Copyright (c) 2018, Alan R. Rogers roger.nosp@m.s@an.nosp@m.thro..nosp@m.utah.nosp@m..edu. This file is released under the Internet Systems Consortium License, which can be found in file "LICENSE".

Function Documentation

◆ is_sitepat()

static int is_sitepat ( const char * s )

static

Return 1 if string begins with '#', then any number of whitespace characters, then "SitePat".

Return 0 otherwise.

◆ StrDblQueue_compare()

int StrDblQueue_compare	(	StrDblQueue *	lhs,
		StrDblQueue *	rhs
	)

Compare the str fields in two StrDblQueue objects.

Return -1, 0, or 1 if the lhs is less than, equal to, or greater than rhs.

◆ StrDblQueue_parseSitePat()

StrDblQueue * StrDblQueue_parseSitePat ( const char * fname )

Parse a data file as produced either by sitepat, tabpat, legosim, or legofit.

Return an object of type StrDblQueue, which contains site pattern names and frequencies.