Search Toolkit Book for NAdapterSearch::IAdapterDetector::SParams
An adapter sequence is presumed to occur at least min_support times in the input, and is overrepresented by a factor of at least min_init_factor relative to most frequent biological words. More...
#include <algo/sequence/adapter_search.hpp>
Collaboration diagram for NAdapterSearch::IAdapterDetector::SParams:
Public Member Functions | |
| SParams () | |
| bool | HaveInitialSupport (size_t top_candidate_sup, size_t non_candidate_sup) const |
| bool | HaveContinuedSupport (size_t top_sup, size_t prev_sup, size_t candidate_sup) const |
Public Attributes | |
| size_t | min_support |
| size_t | top_n |
| float | min_init_factor |
| float | min_ext_factor_adj |
| float | min_ext_factor_top |
Detailed Description
An adapter sequence is presumed to occur at least min_support times in the input, and is overrepresented by a factor of at least min_init_factor relative to most frequent biological words.
The seed word will be extended as long as it remains frequent enough and does not drop off too sharply relative to adjacent word.
Definition at line 106 of file adapter_search.hpp.
Constructor & Destructor Documentation
◆ SParams()
|
inline |
Definition at line 114 of file adapter_search.hpp.
Member Function Documentation
◆ HaveContinuedSupport()
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inline |
Definition at line 136 of file adapter_search.hpp.
References min_ext_factor_adj, and min_ext_factor_top.
Referenced by NAdapterSearch::CPairedEndAdapterDetector::CConsensusPattern::InferConsensus().
◆ HaveInitialSupport()
|
inline |
Definition at line 125 of file adapter_search.hpp.
References min_init_factor, and min_support.
Referenced by NAdapterSearch::CPairedEndAdapterDetector::CConsensusPattern::InferConsensus().
Member Data Documentation
◆ min_ext_factor_adj
| float NAdapterSearch::IAdapterDetector::SParams::min_ext_factor_adj |
Definition at line 111 of file adapter_search.hpp.
Referenced by HaveContinuedSupport().
◆ min_ext_factor_top
| float NAdapterSearch::IAdapterDetector::SParams::min_ext_factor_top |
Definition at line 112 of file adapter_search.hpp.
Referenced by HaveContinuedSupport().
◆ min_init_factor
| float NAdapterSearch::IAdapterDetector::SParams::min_init_factor |
Definition at line 110 of file adapter_search.hpp.
Referenced by HaveInitialSupport().
◆ min_support
| size_t NAdapterSearch::IAdapterDetector::SParams::min_support |
Definition at line 108 of file adapter_search.hpp.
Referenced by HaveInitialSupport().
◆ top_n
| size_t NAdapterSearch::IAdapterDetector::SParams::top_n |
Definition at line 109 of file adapter_search.hpp.
The documentation for this struct was generated from the following file:
- include/algo/sequence/adapter_search.hpp
