Mercurial > repos > calkan > mrcanavar

comparison mrcanavar-0.34/sam.h @ 0:86522a0b5f59 default tip

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Uploaded source code for mrCaNaVaR
author calkan
date Tue, 21 Feb 2012 10:44:13 -0500
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-1:000000000000 0:86522a0b5f59
1 #ifndef __SAM
2 #define __SAM
3
4 #include <stdio.h>
5 #include <stdlib.h>
6 #include <string.h>
7 #include <zlib.h>
8 #include <dirent.h>
9
10 #include "globals.h"
11 #include "utils.h"
12
13 void read_depth(char *, char *, char);
14 void readSAM(char *, char *, char);
15
16 int insert_read_lw(char *, int, char *, int);
17 int insert_read_sw(char *, int, char *, int);
18 int insert_read_cw(char *, int, char *, int);
19
20 int findChrom(char *, char *, int);
21
22 int binSearch(char *);
23
24 int windowSearch(struct window *, int, int);
25
26 void saveDepth(char *);
27
28 #endif