| /dports/biology/freebayes/freebayes-1.3.5/vcflib/tabixpp/ |
| H A D | tabix.cpp | 3 Tabix::Tabix(void) { } in Tabix() function in Tabix
5 Tabix::Tabix(string& file) { in Tabix() function in Tabix
57 Tabix::~Tabix(void) { in ~Tabix()
63 const kstring_t * Tabix::getKstringPtr(){ in getKstringPtr()
67 void Tabix::getHeader(string& header) { in getHeader()
83 bool Tabix::setRegion(string& region) { in setRegion()
90 bool Tabix::getNextLine(string& line) { in getNextLine()
118 bool Tabix::getNextLineKS() { in getNextLineKS()
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| H A D | tabix.hpp | 14 class Tabix { class
30 Tabix(void);
31 Tabix(string& file);
32 ~Tabix(void);
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| H A D | main.cpp | 22 Tabix file(filename); in main()
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| /dports/biology/tabixpp/tabixpp-1.0.0-10-g6bbe690/ |
| H A D | tabix.cpp | 3 Tabix::Tabix(void) { } in Tabix() function in Tabix
5 Tabix::Tabix(string& file) { in Tabix() function in Tabix
57 Tabix::~Tabix(void) { in ~Tabix()
63 const kstring_t * Tabix::getKstringPtr(){ in getKstringPtr()
67 void Tabix::getHeader(string& header) { in getHeader()
83 bool Tabix::setRegion(string& region) { in setRegion()
90 bool Tabix::getNextLine(string& line) { in getNextLine()
118 bool Tabix::getNextLineKS() { in getNextLineKS()
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| H A D | tabix.hpp | 14 class Tabix { class
30 Tabix(void);
31 Tabix(string& file);
32 ~Tabix(void);
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| H A D | main.cpp | 22 Tabix file(filename); in main()
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| /dports/biology/bamutil/bamUtil-1.0.15/libStatGen/general/ |
| H A D | Tabix.cpp | 21 Tabix::Tabix() in Tabix() function in Tabix
28 Tabix::~Tabix() in ~Tabix()
39 void Tabix::resetIndex() in resetIndex()
52 StatGenStatus::Status Tabix::readIndex(const char* filename) in readIndex()
218 bool Tabix::getStartPos(const char* refName, int32_t start, in getStartPos()
247 const char* Tabix::getRefName(unsigned int indexNum) const in getRefName()
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| H A D | Tabix.h | 31 class Tabix : public IndexBase
42 Tabix();
43 virtual ~Tabix();
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| H A D | Makefile | 81 Tabix \
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| H A D | Makefile.depends | 132 $(OBJDIR_OPT)/Tabix.o: Tabix.h IndexBase.h InputFile.h FileType.h
133 $(OBJDIR_OPT)/Tabix.o: StatGenStatus.h ErrorHandler.h StringBasics.h
291 $(OBJDIR_DEBUG)/Tabix.o: Tabix.h IndexBase.h InputFile.h FileType.h
292 $(OBJDIR_DEBUG)/Tabix.o: StatGenStatus.h ErrorHandler.h StringBasics.h
455 $(OBJDIR_PROFILE)/Tabix.o: Tabix.h IndexBase.h InputFile.h FileType.h
456 $(OBJDIR_PROFILE)/Tabix.o: StatGenStatus.h ErrorHandler.h StringBasics.h
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| /dports/biology/bamutil/bamUtil-1.0.15/libStatGen/vcf/ |
| H A D | VcfFileReader.h | 98 const Tabix* getVcfIndex();
222 Tabix* myVcfIndex;
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| H A D | VcfFileReader.cpp | 115 myVcfIndex = new Tabix(); in readVcfIndex()
128 if(myVcfIndex->getFormat() != Tabix::FORMAT_VCF) in readVcfIndex()
208 const Tabix* VcfFileReader::getVcfIndex() in getVcfIndex()
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| /dports/sysutils/file/file-5.39/magic/Magdir/ |
| H A D | bioinformatics | 19 # Tabix index file
22 0 string TBI\1 SAMtools TBI (Tabix index format)
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| /dports/devel/py-magic/file-5.40/magic/Magdir/ |
| H A D | bioinformatics | 19 # Tabix index file
22 0 string TBI\1 SAMtools TBI (Tabix index format)
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| /dports/biology/vcflib/vcflib-1.0.2/src/ |
| H A D | Variant.h | 76 Tabix* tabixFile;
123 tabixFile = new Tabix(filename); in openTabix()
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| /dports/biology/freebayes/freebayes-1.3.5/vcflib-temp/src/ |
| H A D | Variant.h | 68 Tabix* tabixFile;
115 tabixFile = new Tabix(filename); in openTabix()
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| /dports/biology/freebayes/freebayes-1.3.5/vcflib/src/ |
| H A D | Variant.h | 68 Tabix* tabixFile;
115 tabixFile = new Tabix(filename); in openTabix()
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| /dports/biology/py-pysam/pysam-0.18.0/doc/ |
| H A D | api.rst | 162 Tabix files
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| H A D | release.rst | 119 * [#761] Test Tabix index contents, not the compression
695 Tabix files between version 0.7.8 and 0.8.0 are
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| /dports/biology/py-pysam/pysam-0.18.0/ |
| H A D | NEWS | 26 * [#761] Test Tabix index contents, not the compression
596 Tabix files between version 0.7.8 and 0.8.0 are
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| /dports/biology/seqan/seqan-library-2.4.0/share/doc/seqan/ |
| H A D | CHANGELOG.rst | 324 - Tabix index: allowing range queries on chromosomal file formats such as VCF
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/ |
| H A D | CHANGELOG.rst | 324 - Tabix index: allowing range queries on chromosomal file formats such as VCF
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| /dports/biology/bamutil/bamUtil-1.0.15/libStatGen/vcf/test/ |
| H A D | VcfFileTest.cpp | 2443 const Tabix* tabixPtr = NULL; in testVcfReadSection()
2459 assert(tabixPtr->getFormat() == Tabix::FORMAT_VCF); in testVcfReadSection()
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| /dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/ |
| H A D | NEWS | 437 * Tabix now has an -D option to disable storing a local copy of a
732 * Tabix and bgzip --help output now goes to standard output. (#754, thanks to
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| /dports/biology/py-pysam/pysam-0.18.0/pysam/ |
| H A D | libctabix.pyx | 322 Number of threads to use for decompressing Tabix files.
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