Data structures and utility functions for configuring search algorithm. More...
Classes | |
struct | seqan3::search_cfg::deletion< value_t > |
A strong type of underlying type uint8_t or double that represents the number or rate of deletions. More... | |
struct | seqan3::search_cfg::insertion< value_t > |
A strong type of underlying type uint8_t or double that represents the number or rate of insertions. More... | |
struct | seqan3::search_cfg::strata |
Configuration element to receive all hits with the best number of errors plus the strata value. A strong type of underlying type uint8_t that represents the number or errors for strata. All hits are found with the fewest numbererrors plus 'value'. More... | |
struct | seqan3::search_cfg::substitution< value_t > |
A strong type of underlying type uint8_t or double that represents the number or rate of substitutions. More... | |
struct | seqan3::search_cfg::total< value_t > |
A strong type of underlying type uint8_t or double that represents the number or rate of total errors. More... | |
Variables | |
constexpr detail::search_config_max_error_adaptor | seqan3::search_cfg::max_error |
A configuration element for the maximum number of errors across all error types (mismatches, insertions, deletions). This is an upper bound of errors independent from error numbers of specific error types. More... | |
constexpr detail::search_config_max_error_rate_adaptor | seqan3::search_cfg::max_error_rate |
A configuration element for the maximum number of errors in percent of the query length across all error types (mismatches, insertions, deletions). This is an upper bound of errors independent from error rates of specific error types. More... | |
detail::search_config_mode_adaptor< seqan3::detail::search_config_mode > constexpr | seqan3::search_cfg::mode |
Configuration element to determine the search mode. | |
detail::search_config_output_adaptor< seqan3::detail::search_config_output > constexpr | seqan3::search_cfg::output |
Configuration element to determine the output type of hits. | |
Data structures and utility functions for configuring search algorithm.
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inline |
A configuration element for the maximum number of errors across all error types (mismatches, insertions, deletions). This is an upper bound of errors independent from error numbers of specific error types.
An insertion corresponds to a base inserted into the query that does not occur in the text at the position, a deletion corresponds to a base deleted from the query sequence that does occur in the indexed text. Deletions at the beginning and at the end of the sequence are not considered during a search.
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inline |
A configuration element for the maximum number of errors in percent of the query length across all error types (mismatches, insertions, deletions). This is an upper bound of errors independent from error rates of specific error types.
An insertion corresponds to a base inserted into the query that does not occur in the text at the position, a deletion corresponds to a base deleted from the query sequence that does occur in the indexed text. Deletions at the beginning and at the end of the sequence are not considered during a search.