1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
|
/***************************************************************************
* PHAST: PHylogenetic Analysis with Space/Time models
* Copyright (c) 2002-2005 University of California, 2006-2010 Cornell
* University. All rights reserved.
*
* This source code is distributed under a BSD-style license. See the
* file LICENSE.txt for details.
***************************************************************************/
/* $Id: phylo_p_print.h,v 1.10 2008-11-12 02:07:59 acs Exp $ */
/* Functions that output data computed by phyloP */
#ifndef PHYLO_P_PRINT_H
#define PHYLO_P_PRINT_H
#include <list_of_lists.h>
void print_prior_only(FILE *outfile, int nsites, char *mod_fname,
Vector *prior_distrib, ListOfLists *result);
void print_post_only(FILE *outfile, char *mod_fname, char *msa_fname,
Vector *post_distrib, double ci, double scale,
ListOfLists *result);
void print_p(FILE *outfile, char *mod_fname, char *msa_fname,
Vector *prior_distrib, double post_mean,
double post_var, double ci, double scale,
ListOfLists *result);
void print_prior_only_joint(FILE *outfile, char *node_name,
int nsites, char *mod_fname,
Matrix *prior_distrib,
ListOfLists *result);
void print_post_only_joint(FILE *outfile, char *node_name, char *mod_fname,
char *msa_fname, Matrix *post_distrib,
double ci, double scale, double sub_scale,
ListOfLists *result);
void print_p_joint(FILE *outfile, char *node_name, char *mod_fname,
char *msa_fname,
double ci, Matrix *prior_joint,
double post_mean, double post_var,
double post_mean_sup, double post_var_sup,
double post_mean_sub, double post_var_sub,
double scale, double sub_scale,
ListOfLists *result);
void print_feats_sph(FILE *outfile, p_value_stats *stats, GFF_Set *gff,
mode_type mode, double epsilon, int output_gff,
ListOfLists *result);
void print_feats_sph_subtree(FILE *outfile, p_value_joint_stats *stats,
GFF_Set *gff, mode_type mode, double epsilon,
int output_gff, ListOfLists *result);
void print_quantiles(FILE *outfile, Vector *distrib, ListOfLists *result);
void print_wig(FILE *outfile, MSA *msa, double *tuple_pvals, char *chrom,
int refidx, int log_trans, ListOfLists *result);
void print_base_by_base(FILE *outfile, char *header, char *chrom, MSA *msa,
char **formatstr, int refidx, ListOfLists *result,
int log_trans_outfile, int log_trans_results, int ncols, ...);
void print_feats_generic(FILE *outfile, char *header, GFF_Set *gff,
char **formatstr, ListOfLists *result,
int log_trans_outfile, int log_trans_results, int ncols, ...);
void print_gff_scores(FILE *outfile, GFF_Set *gff, double *pvals,
int log_trans);
#endif
|
