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NVBIO
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NVBIO
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This is the complete list of members for nvbio::io::SequenceDataFile_BAM, including all inherited members.
| append(const Alphabet alphabet, SequenceDataHost *data, SequenceDataInputStream *stream, const uint32 batch_size, const uint32 batch_bps=uint32(-1)) | nvbio::io::SequenceDataInputStream | related |
| FILE_EOF enum value | nvbio::io::SequenceDataFile | |
| FILE_NOT_READY enum value | nvbio::io::SequenceDataFile | |
| FILE_OK enum value | nvbio::io::SequenceDataFile | |
| FILE_OPEN_FAILED enum value | nvbio::io::SequenceDataFile | |
| FILE_PARSE_ERROR enum value | nvbio::io::SequenceDataFile | |
| FILE_STREAM_ERROR enum value | nvbio::io::SequenceDataFile | |
| FileState enum name | nvbio::io::SequenceDataFile | |
| init(void) | nvbio::io::SequenceDataFile_BAM | |
| is_ok(void) | nvbio::io::SequenceDataFile | inlinevirtual |
| LONG_READ | nvbio::io::SequenceDataFile | static |
| m_file_state | nvbio::io::SequenceDataFile | protected |
| m_loaded | nvbio::io::SequenceDataFile | protected |
| m_options | nvbio::io::SequenceDataFile | protected |
| next(struct SequenceDataEncoder *encoder, const uint32 batch_size, const uint32 batch_bps) | nvbio::io::SequenceDataFile | virtual |
| nvbio::io::SequenceDataInputStream::next(const Alphabet alphabet, SequenceDataHost *data, SequenceDataInputStream *stream, const uint32 batch_size, const uint32 batch_bps=uint32(-1)) | nvbio::io::SequenceDataInputStream | related |
| nextChunk(struct SequenceDataEncoder *output, uint32 max_reads, uint32 max_bps) | nvbio::io::SequenceDataFile_BAM | virtual |
| open_sequence_file(const char *sequence_file_name, const QualityEncoding qualities=Phred33, const uint32 max_seqs=uint32(-1), const uint32 max_sequence_len=uint32(-1), const SequenceEncoding flags=FORWARD, const uint32 trim3=0, const uint32 trim5=0) | nvbio::io::SequenceDataInputStream | related |
| rewind() | nvbio::io::SequenceDataFile_BAM | virtual |
| SequenceDataFile(const Options &options) | nvbio::io::SequenceDataFile | inlineprotected |
| SequenceDataFile_BAM(const char *read_file_name, const SequenceDataFile::Options &options) | nvbio::io::SequenceDataFile_BAM | |
| skip(SequenceDataInputStream *stream, const uint32 batch_size) | nvbio::io::SequenceDataInputStream | related |
| ~SequenceDataFile() | nvbio::io::SequenceDataFile | inlinevirtual |
| ~SequenceDataInputStream() | nvbio::io::SequenceDataInputStream | inlinevirtual |
1.8.4