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nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme > Member List

This is the complete list of members for nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >, including all inherited members.

AllMappingPipelineState(const uint32 _anchor, const read_batch_type _reads, const read_batch_type _reads_o, const uint32 _genome_len, const genome_iterator _genome, const fmi_type _fmi, const rfmi_type _rfmi, const ScoringScheme _scoring_scheme, const int32 _score_limit, Aligner &_aligner)nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >inline
anchornvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
base_type typedefnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
BaseScoringPipelineState(const uint32 _anchor, const read_batch_type _reads, const read_batch_type _reads_o, const uint32 _genome_len, const genome_iterator _genome, const fmi_type _fmi, const rfmi_type _rfmi, const ScoringScheme _scoring_scheme, const int32 _score_limit, Aligner &_aligner)nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >inline
buffer_alignmentsnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
buffer_read_infonvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
cigarnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
cigar_coordsnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
dp_buffernvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
dp_buffer_sizenvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
fminvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
fmi_type typedefnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
genomenvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
genome_iterator typedefnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
genome_lengthnvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
get_reads(const uint32 mate) const nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >inline
hitsnvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
hits_queue_sizenvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
idx_queuenvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
mdsnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
n_hits_per_readnvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
opposite_queuenvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
opposite_queue_sizenvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
output_read_infonvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
read_batch_type typedefnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
readsnvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
reads_onvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
rfminvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
rfmi_type typedefnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
scheme_type typedefnvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
score_limitnvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
scoring_queuesnvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
scoring_schemenvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >