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comparison BEDTools-Version-2.14.3/src/complementBed/complementBed.h @ 0:dfcd8b6c1bda

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author aaronquinlan
date Thu, 03 Nov 2011 10:25:04 -0400
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1 /*****************************************************************************
2 complementBed.h
3
4 (c) 2009 - Aaron Quinlan
5 Hall Laboratory
6 Department of Biochemistry and Molecular Genetics
7 University of Virginia
8 aaronquinlan@gmail.com
9
10 Licenced under the GNU General Public License 2.0 license.
11 ******************************************************************************/
12 #include "bedFile.h"
13 #include "genomeFile.h"
14
15 #include <vector>
16 #include <bitset>
17 #include <algorithm>
18 #include <iostream>
19 #include <fstream>
20 #include <limits.h>
21 #include <stdlib.h>
22
23 using namespace std;
24
25
26 //************************************************
27 // Class methods and elements
28 //************************************************
29 class BedComplement {
30
31 public:
32
33 // constructor
34 BedComplement(string &bedFile, string &genomeFile);
35
36 // destructor
37 ~BedComplement(void);
38
39 void ComplementBed();
40
41 private:
42
43 string _bedFile;
44 string _genomeFile;
45 BedFile *_bed;
46 GenomeFile *_genome;
47 };