X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sam%2Fbcftools%2Fprob1.h;fp=sam%2Fbcftools%2Fprob1.h;h=38275349750bde05f386387a36dc6ffdc0466223;hb=2e4fdfb2673d928779b04bc5ebe8fcb304a45eaa;hp=0000000000000000000000000000000000000000;hpb=a97cc1d4f0111f7fe523227412a2147f7a763d56;p=rsem.git

diff --git a/sam/bcftools/prob1.h b/sam/bcftools/prob1.h
new file mode 100644
index 0000000..3827534
--- /dev/null
+++ b/sam/bcftools/prob1.h
@@ -0,0 +1,41 @@
+#ifndef BCF_PROB1_H
+#define BCF_PROB1_H
+
+#include "bcf.h"
+
+struct __bcf_p1aux_t;
+typedef struct __bcf_p1aux_t bcf_p1aux_t;
+
+typedef struct {
+	int rank0;
+	double f_em, f_exp, f_flat, p_ref;
+	double cil, cih;
+	double pc[4];
+	double g[3];
+} bcf_p1rst_t;
+
+#define MC_PTYPE_FULL  1
+#define MC_PTYPE_COND2 2
+#define MC_PTYPE_FLAT  3
+
+#ifdef __cplusplus
+extern "C" {
+#endif
+
+	bcf_p1aux_t *bcf_p1_init(int n);
+	void bcf_p1_init_prior(bcf_p1aux_t *ma, int type, double theta);
+	void bcf_p1_init_subprior(bcf_p1aux_t *ma, int type, double theta);
+	void bcf_p1_destroy(bcf_p1aux_t *ma);
+	int bcf_p1_cal(bcf1_t *b, bcf_p1aux_t *ma, bcf_p1rst_t *rst);
+	int bcf_p1_call_gt(const bcf_p1aux_t *ma, double f0, int k);
+	void bcf_p1_dump_afs(bcf_p1aux_t *ma);
+	int bcf_p1_read_prior(bcf_p1aux_t *ma, const char *fn);
+	long double bcf_p1_cal_g3(bcf_p1aux_t *p1a, double g[3]);
+	int bcf_p1_set_n1(bcf_p1aux_t *b, int n1);
+	void bcf_p1_set_folded(bcf_p1aux_t *p1a); // only effective when set_n1() is not called
+
+#ifdef __cplusplus
+}
+#endif
+
+#endif