Mercurial > repos > vipints > rdiff

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

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
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
line wrap: on
line source

/* written by Jonas Behr, Regina Bohnert and Gunnar Raetsch, FML Tuebingen, Germany, 2010 */

#ifndef __GET_READS_DIRECT_H__
#define __GET_READS_DIRECT_H__

#include <vector>
  using std::vector;
#include "read.h"

static int g_flag_on = 0, g_flag_off = 0;

static int subsample = 100; 
static int collapse = 0;

int get_reads_from_bam(char* filename, char* region, vector<CRead*>* reads, char strand, int lsubsample);

#endif