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annotate rDiff/mex/get_reads_direct.h @ 2:233c30f91d66

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updated python based GFF parsing module which will handle GTF/GFF/GFF3 file types
author vipints <vipin@cbio.mskcc.org>
date Tue, 08 Oct 2013 07:15:44 -0400
parents 0f80a5141704
children
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1 /* written by Jonas Behr, Regina Bohnert and Gunnar Raetsch, FML Tuebingen, Germany, 2010 */
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3 #ifndef __GET_READS_DIRECT_H__
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4 #define __GET_READS_DIRECT_H__
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5
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6 #include <vector>
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7 using std::vector;
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8 #include "read.h"
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9
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10 static int g_flag_on = 0, g_flag_off = 0;
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12 static int subsample = 100;
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13 static int collapse = 0;
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15 int get_reads_from_bam(char* filename, char* region, vector<CRead*>* reads, char strand, int lsubsample);
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17 #endif