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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "https://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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<li class="navelem"><a class="el" href="namespacebtllib.html">btllib</a></li><li class="navelem"><a class="el" href="classbtllib_1_1BlindNtHash.html">BlindNtHash</a></li> </ul>
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<div class="header">
<div class="summary">
<a href="#pub-methods">Public Member Functions</a> |
<a href="classbtllib_1_1BlindNtHash-members.html">List of all members</a> </div>
<div class="headertitle"><div class="title">btllib::BlindNtHash Class Reference</div></div>
</div><!--header-->
<div class="contents">
<p><code>#include <<a class="el" href="nthash__kmer_8hpp_source.html">nthash_kmer.hpp</a>></code></p>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a id="pub-methods" name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr class="memitem:a9104f050840d88caebf92e78ba31af9c" id="r_a9104f050840d88caebf92e78ba31af9c"><td class="memItemLeft" align="right" valign="top"> </td><td class="memItemRight" valign="bottom"><a class="el" href="#a9104f050840d88caebf92e78ba31af9c">BlindNtHash</a> (const std::string &seq, hashing_internals::NUM_HASHES_TYPE num_hashes, hashing_internals::K_TYPE k, long pos=0)</td></tr>
<tr class="separator:a9104f050840d88caebf92e78ba31af9c"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a2585096b75505d3744255475f53d8853" id="r_a2585096b75505d3744255475f53d8853"><td class="memItemLeft" align="right" valign="top"><a id="a2585096b75505d3744255475f53d8853" name="a2585096b75505d3744255475f53d8853"></a>
 </td><td class="memItemRight" valign="bottom"><b>BlindNtHash</b> (const <a class="el" href="classbtllib_1_1BlindNtHash.html">BlindNtHash</a> &obj)</td></tr>
<tr class="separator:a2585096b75505d3744255475f53d8853"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a453bb22c3a01d55414d5663078f5ec43" id="r_a453bb22c3a01d55414d5663078f5ec43"><td class="memItemLeft" align="right" valign="top"><a id="a453bb22c3a01d55414d5663078f5ec43" name="a453bb22c3a01d55414d5663078f5ec43"></a>
 </td><td class="memItemRight" valign="bottom"><b>BlindNtHash</b> (<a class="el" href="classbtllib_1_1BlindNtHash.html">BlindNtHash</a> &&)=default</td></tr>
<tr class="separator:a453bb22c3a01d55414d5663078f5ec43"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a1e6bf54c3e8fef74dfee9395b0bc27ad" id="r_a1e6bf54c3e8fef74dfee9395b0bc27ad"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="#a1e6bf54c3e8fef74dfee9395b0bc27ad">roll</a> (char char_in)</td></tr>
<tr class="separator:a1e6bf54c3e8fef74dfee9395b0bc27ad"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ae69bfb6bb6fb2aaaaf53e7396dda1e19" id="r_ae69bfb6bb6fb2aaaaf53e7396dda1e19"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="#ae69bfb6bb6fb2aaaaf53e7396dda1e19">roll_back</a> (char char_in)</td></tr>
<tr class="separator:ae69bfb6bb6fb2aaaaf53e7396dda1e19"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a10d58fa208c58d684d6bcc68a627d8ef" id="r_a10d58fa208c58d684d6bcc68a627d8ef"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="#a10d58fa208c58d684d6bcc68a627d8ef">peek</a> (char char_in)</td></tr>
<tr class="separator:a10d58fa208c58d684d6bcc68a627d8ef"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:ada56346c4ea1c8a38250b853975fd3fe" id="r_ada56346c4ea1c8a38250b853975fd3fe"><td class="memItemLeft" align="right" valign="top">void </td><td class="memItemRight" valign="bottom"><a class="el" href="#ada56346c4ea1c8a38250b853975fd3fe">peek_back</a> (char char_in)</td></tr>
<tr class="separator:ada56346c4ea1c8a38250b853975fd3fe"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a61c5f4ad8a8256c0c879686dafb35b17" id="r_a61c5f4ad8a8256c0c879686dafb35b17"><td class="memItemLeft" align="right" valign="top">const uint64_t * </td><td class="memItemRight" valign="bottom"><a class="el" href="#a61c5f4ad8a8256c0c879686dafb35b17">hashes</a> () const</td></tr>
<tr class="separator:a61c5f4ad8a8256c0c879686dafb35b17"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a05d7b9b7837afb53369d989fcc48b6d2" id="r_a05d7b9b7837afb53369d989fcc48b6d2"><td class="memItemLeft" align="right" valign="top">long </td><td class="memItemRight" valign="bottom"><a class="el" href="#a05d7b9b7837afb53369d989fcc48b6d2">get_pos</a> () const</td></tr>
<tr class="separator:a05d7b9b7837afb53369d989fcc48b6d2"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a6d6fe34bade861a82cb45a8a5ea4c396" id="r_a6d6fe34bade861a82cb45a8a5ea4c396"><td class="memItemLeft" align="right" valign="top">hashing_internals::NUM_HASHES_TYPE </td><td class="memItemRight" valign="bottom"><a class="el" href="#a6d6fe34bade861a82cb45a8a5ea4c396">get_hash_num</a> () const</td></tr>
<tr class="separator:a6d6fe34bade861a82cb45a8a5ea4c396"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a0e143723cdadaf448bf9f65775038af5" id="r_a0e143723cdadaf448bf9f65775038af5"><td class="memItemLeft" align="right" valign="top">hashing_internals::K_TYPE </td><td class="memItemRight" valign="bottom"><a class="el" href="#a0e143723cdadaf448bf9f65775038af5">get_k</a> () const</td></tr>
<tr class="separator:a0e143723cdadaf448bf9f65775038af5"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a0c4cacece9728df18ddd6ef4bd61feb3" id="r_a0c4cacece9728df18ddd6ef4bd61feb3"><td class="memItemLeft" align="right" valign="top">uint64_t </td><td class="memItemRight" valign="bottom"><a class="el" href="#a0c4cacece9728df18ddd6ef4bd61feb3">get_forward_hash</a> () const</td></tr>
<tr class="separator:a0c4cacece9728df18ddd6ef4bd61feb3"><td class="memSeparator" colspan="2"> </td></tr>
<tr class="memitem:a11c219c336e570d6a62fb527dc01f6ef" id="r_a11c219c336e570d6a62fb527dc01f6ef"><td class="memItemLeft" align="right" valign="top">uint64_t </td><td class="memItemRight" valign="bottom"><a class="el" href="#a11c219c336e570d6a62fb527dc01f6ef">get_reverse_hash</a> () const</td></tr>
<tr class="separator:a11c219c336e570d6a62fb527dc01f6ef"><td class="memSeparator" colspan="2"> </td></tr>
</table>
<a name="details" id="details"></a><h2 class="groupheader">Detailed Description</h2>
<div class="textblock"><p>Similar to the <a class="el" href="classbtllib_1_1NtHash.html">NtHash</a> class, but instead of rolling on a predefined sequence, <a class="el" href="classbtllib_1_1BlindNtHash.html">BlindNtHash</a> needs to be fed the new character on each roll. This is useful when traversing an implicit de Bruijn Graph, as we need to query all bases to know the possible extensions. </p>
</div><h2 class="groupheader">Constructor & Destructor Documentation</h2>
<a id="a9104f050840d88caebf92e78ba31af9c" name="a9104f050840d88caebf92e78ba31af9c"></a>
<h2 class="memtitle"><span class="permalink"><a href="#a9104f050840d88caebf92e78ba31af9c">◆ </a></span>BlindNtHash()</h2>
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<td class="memname">btllib::BlindNtHash::BlindNtHash </td>
<td>(</td>
<td class="paramtype">const std::string &</td> <td class="paramname"><span class="paramname"><em>seq</em></span>, </td>
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<td class="paramkey"></td>
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<td class="paramtype">hashing_internals::NUM_HASHES_TYPE</td> <td class="paramname"><span class="paramname"><em>num_hashes</em></span>, </td>
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<td class="paramtype">hashing_internals::K_TYPE</td> <td class="paramname"><span class="paramname"><em>k</em></span>, </td>
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<td class="paramtype">long</td> <td class="paramname"><span class="paramname"><em>pos</em></span><span class="paramdefsep"> = </span><span class="paramdefval">0</span> )</td>
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<p>Construct an ntHash object for hashing k-mers on-the-fly. </p><dl class="params"><dt>Parameters</dt><dd>
<table class="params">
<tr><td class="paramname">seq</td><td>Sequence data. Only the first <code>k</code> characters will be used, starting from <code>pos</code>. </td></tr>
<tr><td class="paramname">hash_num</td><td>Number of hashes to generate per k-mer </td></tr>
<tr><td class="paramname">k</td><td>K-mer size </td></tr>
<tr><td class="paramname">pos</td><td>Position in sequence to start hashing from </td></tr>
</table>
</dd>
</dl>
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</div>
<h2 class="groupheader">Member Function Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#a0c4cacece9728df18ddd6ef4bd61feb3">◆ </a></span>get_forward_hash()</h2>
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<td class="memname">uint64_t btllib::BlindNtHash::get_forward_hash </td>
<td>(</td>
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<td> const</td>
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<p>Get the hash value of the forward strand. </p><dl class="section return"><dt>Returns</dt><dd>Forward hash value </dd></dl>
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<h2 class="memtitle"><span class="permalink"><a href="#a6d6fe34bade861a82cb45a8a5ea4c396">◆ </a></span>get_hash_num()</h2>
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<td class="memname">hashing_internals::NUM_HASHES_TYPE btllib::BlindNtHash::get_hash_num </td>
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<td> const</td>
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<p>Get the number of hashes generated per k-mer. </p><dl class="section return"><dt>Returns</dt><dd>Number of hashes per k-mer </dd></dl>
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<h2 class="memtitle"><span class="permalink"><a href="#a0e143723cdadaf448bf9f65775038af5">◆ </a></span>get_k()</h2>
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<td class="memname">hashing_internals::K_TYPE btllib::BlindNtHash::get_k </td>
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<td> const</td>
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<p>Get the length of the k-mers. </p><dl class="section return"><dt>Returns</dt><dd><code>k</code> </dd></dl>
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<h2 class="memtitle"><span class="permalink"><a href="#a05d7b9b7837afb53369d989fcc48b6d2">◆ </a></span>get_pos()</h2>
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<td class="memname">long btllib::BlindNtHash::get_pos </td>
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<p>Get the position of last hashed k-mer or the k-mer to be hashed if <a class="el" href="#a1e6bf54c3e8fef74dfee9395b0bc27ad">roll()</a> has never been called on this <a class="el" href="classbtllib_1_1NtHash.html">NtHash</a> object. </p><dl class="section return"><dt>Returns</dt><dd>Position of the most recently hashed k-mer's first base-pair </dd></dl>
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<h2 class="memtitle"><span class="permalink"><a href="#a11c219c336e570d6a62fb527dc01f6ef">◆ </a></span>get_reverse_hash()</h2>
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<td class="memname">uint64_t btllib::BlindNtHash::get_reverse_hash </td>
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<p>Get the hash value of the reverse strand. </p><dl class="section return"><dt>Returns</dt><dd>Reverse-complement hash value </dd></dl>
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<h2 class="memtitle"><span class="permalink"><a href="#a61c5f4ad8a8256c0c879686dafb35b17">◆ </a></span>hashes()</h2>
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<td class="memname">const uint64_t * btllib::BlindNtHash::hashes </td>
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<p>Get the array of current hash values (length = <code><a class="el" href="#a6d6fe34bade861a82cb45a8a5ea4c396">get_hash_num()</a></code>) </p><dl class="section return"><dt>Returns</dt><dd>Pointer to the hash array </dd></dl>
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<h2 class="memtitle"><span class="permalink"><a href="#a10d58fa208c58d684d6bcc68a627d8ef">◆ </a></span>peek()</h2>
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<td class="memname">void btllib::BlindNtHash::peek </td>
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<p>Like <a class="el" href="classbtllib_1_1NtHash.html#a0e98ea50f8b3cabafbfd1b8ab13305df">NtHash::peek()</a>, but as if <a class="el" href="#a1e6bf54c3e8fef74dfee9395b0bc27ad">roll(char char_in)</a> was called. </p>
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<h2 class="memtitle"><span class="permalink"><a href="#ada56346c4ea1c8a38250b853975fd3fe">◆ </a></span>peek_back()</h2>
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<td class="memname">void btllib::BlindNtHash::peek_back </td>
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<p>Like <a class="el" href="#a10d58fa208c58d684d6bcc68a627d8ef">peek(char char_in)</a>, but as if <a class="el" href="#ae69bfb6bb6fb2aaaaf53e7396dda1e19">roll_back(char char_in)</a> was called. </p>
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<h2 class="memtitle"><span class="permalink"><a href="#a1e6bf54c3e8fef74dfee9395b0bc27ad">◆ </a></span>roll()</h2>
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<td class="memname">void btllib::BlindNtHash::roll </td>
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<p>Like the <a class="el" href="classbtllib_1_1NtHash.html#a244c0c11655b6e1c52dd7c4528b8ed05">NtHash::roll()</a> function, but instead of advancing in the sequence <a class="el" href="classbtllib_1_1BlindNtHash.html">BlindNtHash</a> object was constructed on, the provided character <code>char_in</code> is used as the next base. Useful if you want to query for possible paths in an implicit de Bruijn graph graph. </p>
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<h2 class="memtitle"><span class="permalink"><a href="#ae69bfb6bb6fb2aaaaf53e7396dda1e19">◆ </a></span>roll_back()</h2>
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<td class="memname">void btllib::BlindNtHash::roll_back </td>
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<p>Like the <a class="el" href="#a1e6bf54c3e8fef74dfee9395b0bc27ad">roll(char char_in)</a> function, but advance backwards. </p>
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<hr/>The documentation for this class was generated from the following file:<ul>
<li>include/btllib/<a class="el" href="nthash__kmer_8hpp_source.html">nthash_kmer.hpp</a></li>
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