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A class for connections to h5Seurat files" />




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    <h1>A class for connections to h5Seurat files</h1>
    <small class="dont-index">Source: <a href='https://github.com/mojaveazure/seurat-disk/blob/master/R/h5Seurat.R'><code>R/h5Seurat.R</code></a></small>
    <div class="hidden name"><code>h5Seurat-class.Rd</code></div>
    </div>

    <div class="ref-description">
    <p>A class for connections to h5Seurat files</p>
<p>A class for connections to h5Seurat files</p>
    </div>



    <h2 class="hasAnchor" id="format"><a class="anchor" href="#format"></a>Format</h2>

    <p>An <code><a href='https://rdrr.io/pkg/R6/man/R6Class.html'>R6Class</a></code> object</p>
    <h2 class="hasAnchor" id="see-also"><a class="anchor" href="#see-also"></a>See also</h2>

    <div class='dont-index'><p><code><a href='http://hhoeflin.github.io/hdf5r/reference/H5File-class.html'>H5File</a></code></p></div>
    <h2 class="hasAnchor" id="super-classes"><a class="anchor" href="#super-classes"></a>Super classes</h2>

    <p><code><a href='http://hhoeflin.github.io/hdf5r/reference/H5RefClass-class.html'>hdf5r::H5RefClass</a></code> -&gt; <code><a href='http://hhoeflin.github.io/hdf5r/reference/H5File-class.html'>hdf5r::H5File</a></code> -&gt; <code><a href='scdisk-class.html'>SeuratDisk::scdisk</a></code> -&gt; <code>h5Seurat</code></p>
    <h2 class="hasAnchor" id="methods"><a class="anchor" href="#methods"></a>Methods</h2>

    
<h3>Public methods</h3>

<ul>
<li><p><a href='#method-index'><code>h5Seurat$index()</code></a></p></li>
<li><p><a href='#method-set.version'><code>h5Seurat$set.version()</code></a></p></li>
<li><p><a href='#method-version'><code>h5Seurat$version()</code></a></p></li>
</ul>
<p><details ><summary>Inherited methods</summary>
<ul>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="close"><a href='../../hdf5r/html/H5RefClass.html#method-close'><code>hdf5r::H5RefClass$close()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="dec_ref"><a href='../../hdf5r/html/H5RefClass.html#method-dec_ref'><code>hdf5r::H5RefClass$dec_ref()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="get_file_id"><a href='../../hdf5r/html/H5RefClass.html#method-get_file_id'><code>hdf5r::H5RefClass$get_file_id()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="get_obj_type"><a href='../../hdf5r/html/H5RefClass.html#method-get_obj_type'><code>hdf5r::H5RefClass$get_obj_type()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="get_ref"><a href='../../hdf5r/html/H5RefClass.html#method-get_ref'><code>hdf5r::H5RefClass$get_ref()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="inc_ref"><a href='../../hdf5r/html/H5RefClass.html#method-inc_ref'><code>hdf5r::H5RefClass$inc_ref()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5RefClass" data-id="methods"><a href='../../hdf5r/html/H5RefClass.html#method-methods'><code>hdf5r::H5RefClass$methods()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_delete"><a href='../../hdf5r/html/H5File.html#method-attr_delete'><code>hdf5r::H5File$attr_delete()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_delete_by_idx"><a href='../../hdf5r/html/H5File.html#method-attr_delete_by_idx'><code>hdf5r::H5File$attr_delete_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_delete_by_name"><a href='../../hdf5r/html/H5File.html#method-attr_delete_by_name'><code>hdf5r::H5File$attr_delete_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_exists"><a href='../../hdf5r/html/H5File.html#method-attr_exists'><code>hdf5r::H5File$attr_exists()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_exists_by_name"><a href='../../hdf5r/html/H5File.html#method-attr_exists_by_name'><code>hdf5r::H5File$attr_exists_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_get_number"><a href='../../hdf5r/html/H5File.html#method-attr_get_number'><code>hdf5r::H5File$attr_get_number()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_info_by_idx"><a href='../../hdf5r/html/H5File.html#method-attr_info_by_idx'><code>hdf5r::H5File$attr_info_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_info_by_name"><a href='../../hdf5r/html/H5File.html#method-attr_info_by_name'><code>hdf5r::H5File$attr_info_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_name_by_idx"><a href='../../hdf5r/html/H5File.html#method-attr_name_by_idx'><code>hdf5r::H5File$attr_name_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_open"><a href='../../hdf5r/html/H5File.html#method-attr_open'><code>hdf5r::H5File$attr_open()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_open_by_idx"><a href='../../hdf5r/html/H5File.html#method-attr_open_by_idx'><code>hdf5r::H5File$attr_open_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_open_by_name"><a href='../../hdf5r/html/H5File.html#method-attr_open_by_name'><code>hdf5r::H5File$attr_open_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_rename"><a href='../../hdf5r/html/H5File.html#method-attr_rename'><code>hdf5r::H5File$attr_rename()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="attr_rename_by_name"><a href='../../hdf5r/html/H5File.html#method-attr_rename_by_name'><code>hdf5r::H5File$attr_rename_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="close_all"><a href='../../hdf5r/html/H5File.html#method-close_all'><code>hdf5r::H5File$close_all()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="commit"><a href='../../hdf5r/html/H5File.html#method-commit'><code>hdf5r::H5File$commit()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="create_attr"><a href='../../hdf5r/html/H5File.html#method-create_attr'><code>hdf5r::H5File$create_attr()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="create_attr_by_name"><a href='../../hdf5r/html/H5File.html#method-create_attr_by_name'><code>hdf5r::H5File$create_attr_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="create_dataset"><a href='../../hdf5r/html/H5File.html#method-create_dataset'><code>hdf5r::H5File$create_dataset()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="create_group"><a href='../../hdf5r/html/H5File.html#method-create_group'><code>hdf5r::H5File$create_group()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="create_reference"><a href='../../hdf5r/html/H5File.html#method-create_reference'><code>hdf5r::H5File$create_reference()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="exists"><a href='../../hdf5r/html/H5File.html#method-exists'><code>hdf5r::H5File$exists()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="file_info"><a href='../../hdf5r/html/H5File.html#method-file_info'><code>hdf5r::H5File$file_info()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="flush"><a href='../../hdf5r/html/H5File.html#method-flush'><code>hdf5r::H5File$flush()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="get_filename"><a href='../../hdf5r/html/H5File.html#method-get_filename'><code>hdf5r::H5File$get_filename()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="get_filesize"><a href='../../hdf5r/html/H5File.html#method-get_filesize'><code>hdf5r::H5File$get_filesize()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="get_intent"><a href='../../hdf5r/html/H5File.html#method-get_intent'><code>hdf5r::H5File$get_intent()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="get_obj_count"><a href='../../hdf5r/html/H5File.html#method-get_obj_count'><code>hdf5r::H5File$get_obj_count()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="get_obj_ids"><a href='../../hdf5r/html/H5File.html#method-get_obj_ids'><code>hdf5r::H5File$get_obj_ids()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="get_obj_name"><a href='../../hdf5r/html/H5File.html#method-get_obj_name'><code>hdf5r::H5File$get_obj_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="group_info"><a href='../../hdf5r/html/H5File.html#method-group_info'><code>hdf5r::H5File$group_info()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="group_info_by_idx"><a href='../../hdf5r/html/H5File.html#method-group_info_by_idx'><code>hdf5r::H5File$group_info_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="group_info_by_name"><a href='../../hdf5r/html/H5File.html#method-group_info_by_name'><code>hdf5r::H5File$group_info_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link"><a href='../../hdf5r/html/H5File.html#method-link'><code>hdf5r::H5File$link()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_copy_from"><a href='../../hdf5r/html/H5File.html#method-link_copy_from'><code>hdf5r::H5File$link_copy_from()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_copy_to"><a href='../../hdf5r/html/H5File.html#method-link_copy_to'><code>hdf5r::H5File$link_copy_to()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_create_external"><a href='../../hdf5r/html/H5File.html#method-link_create_external'><code>hdf5r::H5File$link_create_external()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_create_hard"><a href='../../hdf5r/html/H5File.html#method-link_create_hard'><code>hdf5r::H5File$link_create_hard()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_create_soft"><a href='../../hdf5r/html/H5File.html#method-link_create_soft'><code>hdf5r::H5File$link_create_soft()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_delete"><a href='../../hdf5r/html/H5File.html#method-link_delete'><code>hdf5r::H5File$link_delete()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_delete_by_idx"><a href='../../hdf5r/html/H5File.html#method-link_delete_by_idx'><code>hdf5r::H5File$link_delete_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_exists"><a href='../../hdf5r/html/H5File.html#method-link_exists'><code>hdf5r::H5File$link_exists()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_info"><a href='../../hdf5r/html/H5File.html#method-link_info'><code>hdf5r::H5File$link_info()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_info_by_idx"><a href='../../hdf5r/html/H5File.html#method-link_info_by_idx'><code>hdf5r::H5File$link_info_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_move_from"><a href='../../hdf5r/html/H5File.html#method-link_move_from'><code>hdf5r::H5File$link_move_from()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_move_to"><a href='../../hdf5r/html/H5File.html#method-link_move_to'><code>hdf5r::H5File$link_move_to()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_name_by_idx"><a href='../../hdf5r/html/H5File.html#method-link_name_by_idx'><code>hdf5r::H5File$link_name_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_value"><a href='../../hdf5r/html/H5File.html#method-link_value'><code>hdf5r::H5File$link_value()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="link_value_by_idx"><a href='../../hdf5r/html/H5File.html#method-link_value_by_idx'><code>hdf5r::H5File$link_value_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="ls"><a href='../../hdf5r/html/H5File.html#method-ls'><code>hdf5r::H5File$ls()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="mount"><a href='../../hdf5r/html/H5File.html#method-mount'><code>hdf5r::H5File$mount()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="obj_copy_from"><a href='../../hdf5r/html/H5File.html#method-obj_copy_from'><code>hdf5r::H5File$obj_copy_from()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="obj_copy_to"><a href='../../hdf5r/html/H5File.html#method-obj_copy_to'><code>hdf5r::H5File$obj_copy_to()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="obj_info"><a href='../../hdf5r/html/H5File.html#method-obj_info'><code>hdf5r::H5File$obj_info()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="obj_info_by_idx"><a href='../../hdf5r/html/H5File.html#method-obj_info_by_idx'><code>hdf5r::H5File$obj_info_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="obj_info_by_name"><a href='../../hdf5r/html/H5File.html#method-obj_info_by_name'><code>hdf5r::H5File$obj_info_by_name()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="open"><a href='../../hdf5r/html/H5File.html#method-open'><code>hdf5r::H5File$open()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="open_by_idx"><a href='../../hdf5r/html/H5File.html#method-open_by_idx'><code>hdf5r::H5File$open_by_idx()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="path_valid"><a href='../../hdf5r/html/H5File.html#method-path_valid'><code>hdf5r::H5File$path_valid()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="print"><a href='../../hdf5r/html/H5File.html#method-print'><code>hdf5r::H5File$print()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="hdf5r" data-topic="H5File" data-id="unmount"><a href='../../hdf5r/html/H5File.html#method-unmount'><code>hdf5r::H5File$unmount()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="SeuratDisk" data-topic="scdisk" data-id="chunk.points"><a href='../../SeuratDisk/html/scdisk.html#method-chunk.points'><code>SeuratDisk::scdisk$chunk.points()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="SeuratDisk" data-topic="scdisk" data-id="finalizer"><a href='../../SeuratDisk/html/scdisk.html#method-finalizer'><code>SeuratDisk::scdisk$finalizer()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="SeuratDisk" data-topic="scdisk" data-id="initialize"><a href='../../SeuratDisk/html/scdisk.html#method-initialize'><code>SeuratDisk::scdisk$initialize()</code></a></span></p></li>
</ul>
</details>

<hr>
<a id="method-index"></a></p><h3>Method <code>index()</code></h3>
<p>Get the index for this h5Seurat file</p><h3>Usage</h3>
<p><div class="r"></p><pre><span class='no'>h5Seurat</span>$<span class='fu'>index</span>()</pre><p></div></p>

<p><hr>
<a id="method-set.version"></a></p><h3>Method <code>set.version()</code></h3>
<p>Set the version attribute</p><h3>Usage</h3>
<p><div class="r"></p><pre><span class='no'>h5Seurat</span>$<span class='fu'>set.version</span>(<span class='no'>version</span>)</pre><p></div></p>

<h3>Arguments</h3>
<p><div class="arguments"></p><dl'>
<dt><code>version</code></dt><dd><p>A version number matching the regex
<code>^\d+(\.\d+){2}(\.9\d{3})?$</code></p></dd>

</dl><p></div></p>
<p><hr>
<a id="method-version"></a></p><h3>Method <code><a href='https://rdrr.io/r/base/Version.html'>version()</a></code></h3>
<p>Get the version attribute</p><h3>Usage</h3>
<p><div class="r"></p><pre><span class='no'>h5Seurat</span>$<span class='fu'><a href='https://rdrr.io/r/base/Version.html'>version</a></span>()</pre><p></div></p>




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