#include <ncbi_pch.hpp>#include <sra/readers/bam/bamgraph.hpp>#include <sra/readers/bam/bamread.hpp>#include <sra/readers/bam/bamindex.hpp>#include <sra/error_codes.hpp>#include <objects/general/general__.hpp>#include <objects/seq/seq__.hpp>#include <objects/seqres/seqres__.hpp>#include <objects/seqloc/seqloc__.hpp>#include <serial/serial.hpp>#include <serial/typeinfo.hpp>#include <cmath>#include <numeric>
Include dependency graph for bamgraph.cpp:
Go to the source code of this file.
Go to the SVN repository for this file.
Macros | |
| #define | NCBI_USE_ERRCODE_X BAM2Graph |
| #define | DEFAULT_BAI_SUFFIX ".bai" |
Functions | |
| NCBI_DEFINE_ERR_SUBCODE_X (6) | |
| static void | sx_SetTitle (CSeq_graph &graph, CSeq_annot &annot, string title, string name) |
Variables | |
| static const int | kDefaultOutlierMax_Byte = 50 |
| static const int | kDefaultOutlierMax_Int = 1000000 |
| static const Uint8 | kDefaultMinMapQuality = 4 |
Macro Definition Documentation
◆ DEFAULT_BAI_SUFFIX
| #define DEFAULT_BAI_SUFFIX ".bai" |
Definition at line 59 of file bamgraph.cpp.
◆ NCBI_USE_ERRCODE_X
| #define NCBI_USE_ERRCODE_X BAM2Graph |
Definition at line 49 of file bamgraph.cpp.
Function Documentation
◆ NCBI_DEFINE_ERR_SUBCODE_X()
| NCBI_DEFINE_ERR_SUBCODE_X | ( | 6 | ) |
◆ sx_SetTitle()
|
static |
Definition at line 524 of file bamgraph.cpp.
References CSeq_annot_Base::SetDesc(), CAnnotdesc_Base::SetName(), and CSeq_graph_Base::SetTitle().
Referenced by CBam2Seq_graph::MakeSeq_annot().
Variable Documentation
◆ kDefaultMinMapQuality
Definition at line 58 of file bamgraph.cpp.
Referenced by CBam2Seq_graph::GetMinMapQuality().
◆ kDefaultOutlierMax_Byte
Definition at line 56 of file bamgraph.cpp.
Referenced by CBam2Seq_graph::GetOutlierMax().
◆ kDefaultOutlierMax_Int
Definition at line 57 of file bamgraph.cpp.
Referenced by CBam2Seq_graph::GetOutlierMax().
