Raptor
3.0.0-rc.1
A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences
threshold_parameters.hpp
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// --------------------------------------------------------------------------------------------------
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// Copyright (c) 2006-2023, Knut Reinert & Freie Universität Berlin
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// Copyright (c) 2016-2023, Knut Reinert & MPI für molekulare Genetik
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// This file may be used, modified and/or redistributed under the terms of the 3-clause BSD-License
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// shipped with this file and also available at: https://github.com/seqan/raptor/blob/main/LICENSE.md
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// --------------------------------------------------------------------------------------------------
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#pragma once
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#include <
filesystem
>
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#include <seqan3/search/kmer_index/shape.hpp>
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namespace
raptor::threshold
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{
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struct
threshold_parameters
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{
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// Basic.
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uint32_t window_size{};
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seqan3::shape shape{};
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uint64_t query_length{};
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// Threshold.
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uint8_t errors{};
// threshold_kinds::(probabilistic|lemma)
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double
percentage{
std::numeric_limits<double>::quiet_NaN
()};
// threshold_kinds::percentage
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double
p_max{};
// threshold_kinds::probabilistic
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double
fpr{};
// threshold_kinds::probabilistic
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double
tau{};
// threshold_kinds::probabilistic
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// Cache results.
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bool
cache_thresholds{};
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std::filesystem::path
output_directory{};
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};
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}
// namespace raptor::threshold
filesystem
std::filesystem::path
std::numeric_limits::quiet_NaN
T quiet_NaN(T... args)
raptor::threshold::threshold_parameters
Definition:
threshold_parameters.hpp:23
raptor
threshold
threshold_parameters.hpp
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