deploy: 1522bb3

Author: AnneHartebrodt

.doctrees/environment.pickle

@@ -351,7 +351,7 @@
 <h1>netmap.downstream.final_downstream.compute_edge_overlaps_simple<a class="headerlink" href="#netmap-downstream-final-downstream-compute-edge-overlaps-simple" title="Link to this heading">¶</a></h1>
 <dl class="py function">
 <dt class="sig sig-object py" id="netmap.downstream.final_downstream.compute_edge_overlaps_simple">
-<span class="sig-prename descclassname"><span class="pre">netmap.downstream.final_downstream.</span></span><span class="sig-name descname"><span class="pre">compute_edge_overlaps_simple</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">grn_adata</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">AnnData</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">net_list</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">List</span><span class="p"><span class="pre">[</span></span><span class="pre">Tuple</span><span class="p"><span class="pre">[</span></span><span class="pre">str</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">DataFrame</span><span class="p"><span class="pre">]</span></span><span class="p"><span class="pre">]</span></span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">Dict</span><span class="p"><span class="pre">[</span></span><span class="pre">__annotationlib_name_1__</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">__annotationlib_name_2__</span><span class="p"><span class="pre">]</span></span></span></span><a class="headerlink" href="#netmap.downstream.final_downstream.compute_edge_overlaps_simple" title="Link to this definition">¶</a></dt>
+<span class="sig-prename descclassname"><span class="pre">netmap.downstream.final_downstream.</span></span><span class="sig-name descname"><span class="pre">compute_edge_overlaps_simple</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">grn_adata</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">AnnData</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">net_list</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">List</span><span class="p"><span class="pre">[</span></span><span class="pre">Tuple</span><span class="p"><span class="pre">[</span></span><span class="pre">str</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">DataFrame</span><span class="p"><span class="pre">]</span></span><span class="p"><span class="pre">]</span></span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">Dict</span><span class="p"><span class="pre">[</span></span><span class="pre">str</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">float</span><span class="p"><span class="pre">]</span></span></span></span><a class="headerlink" href="#netmap.downstream.final_downstream.compute_edge_overlaps_simple" title="Link to this definition">¶</a></dt>
 <dd><p>Compute the percentage of overlapping edges between a GRN and multiple reference networks.</p>
 <dl class="field-list simple">
 <dt class="field-odd">Parameters<span class="colon">:</span></dt>

.doctrees/generated/netmap.downstream.final_downstream.compute_edge_overlaps_simple.doctree

@@ -351,7 +351,7 @@
 <h1>netmap.downstream.final_downstream.filter_clusters_by_cell_count<a class="headerlink" href="#netmap-downstream-final-downstream-filter-clusters-by-cell-count" title="Link to this heading">¶</a></h1>
 <dl class="py function">
 <dt class="sig sig-object py" id="netmap.downstream.final_downstream.filter_clusters_by_cell_count">
-<span class="sig-prename descclassname"><span class="pre">netmap.downstream.final_downstream.</span></span><span class="sig-name descname"><span class="pre">filter_clusters_by_cell_count</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">grn_adata</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">AnnData</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">metric_tag</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">top_fraction</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">Tuple</span><span class="p"><span class="pre">[</span></span><span class="pre">Dict</span><span class="p"><span class="pre">[</span></span><span class="pre">__annotationlib_name_1__</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">__annotationlib_name_2__</span><span class="p"><span class="pre">]</span></span><span class="w"> </span><span class="p"><span class="pre">|</span></span><span class="w"> </span><span class="pre">None</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">AnnData</span><span class="p"><span class="pre">]</span></span></span></span><a class="headerlink" href="#netmap.downstream.final_downstream.filter_clusters_by_cell_count" title="Link to this definition">¶</a></dt>
+<span class="sig-prename descclassname"><span class="pre">netmap.downstream.final_downstream.</span></span><span class="sig-name descname"><span class="pre">filter_clusters_by_cell_count</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">grn_adata</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">AnnData</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">metric_tag</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span></em>, <em class="sig-param"><span class="n"><span class="pre">top_fraction</span></span><span class="p"><span class="pre">:</span></span><span class="w"> </span><span class="n"><span class="pre">float</span></span></em><span class="sig-paren">)</span> <span class="sig-return"><span class="sig-return-icon">&#x2192;</span> <span class="sig-return-typehint"><span class="pre">Tuple</span><span class="p"><span class="pre">[</span></span><span class="pre">Dict</span><span class="p"><span class="pre">[</span></span><span class="pre">str</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">float</span><span class="p"><span class="pre">]</span></span><span class="w"> </span><span class="p"><span class="pre">|</span></span><span class="w"> </span><span class="pre">None</span><span class="p"><span class="pre">,</span></span><span class="w"> </span><span class="pre">AnnData</span><span class="p"><span class="pre">]</span></span></span></span><a class="headerlink" href="#netmap.downstream.final_downstream.filter_clusters_by_cell_count" title="Link to this definition">¶</a></dt>
 <dd><p>Filter features (genes/edges) based on cell count differences between two clusters,
 selecting the top fraction of features for each cluster.</p>
 <dl class="field-list simple">