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<h1 id="index">Index</h1>
<div class="genindex-jumpbox">
<a href="#Symbols"><strong>Symbols</strong></a>
| <a href="#A"><strong>A</strong></a>
| <a href="#B"><strong>B</strong></a>
| <a href="#C"><strong>C</strong></a>
| <a href="#D"><strong>D</strong></a>
| <a href="#E"><strong>E</strong></a>
| <a href="#F"><strong>F</strong></a>
| <a href="#G"><strong>G</strong></a>
| <a href="#I"><strong>I</strong></a>
| <a href="#L"><strong>L</strong></a>
| <a href="#N"><strong>N</strong></a>
| <a href="#O"><strong>O</strong></a>
| <a href="#P"><strong>P</strong></a>
| <a href="#R"><strong>R</strong></a>
| <a href="#S"><strong>S</strong></a>
| <a href="#T"><strong>T</strong></a>
| <a href="#U"><strong>U</strong></a>
</div>
<h2 id="Symbols">Symbols</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li>
--version
<ul>
<li><a href="index.html#cmdoption-pathflowai-monitor-version">pathflowai-monitor command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-version">pathflowai-preprocess command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-version">pathflowai-visualize command line option</a>
</li>
</ul></li>
<li>
-a, --annotation_txt <annotation_txt>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-a">pathflowai-visualize-overlay_new_annotations command line option</a>
</li>
</ul></li>
<li>
-a, --annotations <annotations>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-a">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-a">pathflowai-visualize-plot_embeddings command line option</a>
</li>
</ul></li>
<li>
-ac, --annotation_col <annotation_col>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-ac">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-al, --alpha <alpha>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-al">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-am, --adjust_mask
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-am">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-an, --annotations
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-an">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-b, --basename <basename>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-b">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-b">pathflowai-preprocess-remove_basename_from_db command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-b">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-b">pathflowai-visualize-plot_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-b">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-b">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-bp, --basic_preprocess
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-bp">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-bs, --batch_size <batch_size>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-bs">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
<li>
-c, --custom_segmentation <custom_segmentation>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-c">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-c">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-cf, --compression_factor <compression_factor>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-cf">pathflowai-visualize-overlay_new_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-cf">pathflowai-visualize-plot_image command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-cf">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-csv, --records_output_csv <records_output_csv>
<ul>
<li><a href="index.html#cmdoption-pathflowai-monitor-monitor-usage-csv">pathflowai-monitor-monitor_usage command line option</a>
</li>
</ul></li>
<li>
-dt, --delay_time <delay_time>
<ul>
<li><a href="index.html#cmdoption-pathflowai-monitor-monitor-usage-dt">pathflowai-monitor-monitor_usage command line option</a>
</li>
</ul></li>
<li>
-e, --embeddings_file <embeddings_file>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-e">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-fr, --from_annotations <from_annotations>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-fr">pathflowai-preprocess-alter_masks command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-fr">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
</ul></li>
<li>
-g, --generate_finetune_segmentation
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-g">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-i, --embeddings_file <embeddings_file>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-i">pathflowai-visualize-plot_embeddings command line option</a>
</li>
</ul></li>
<li>
-i, --image_file <image_file>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-i">pathflowai-visualize-plot_image command line option</a>
</li>
</ul></li>
<li>
-i, --img_file <img_file>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-i">pathflowai-visualize-overlay_new_annotations command line option</a>
</li>
</ul></li>
<li>
-i, --input_dir <input_dir>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-i">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-i">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-i">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-i">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-i, --input_patch_db <input_patch_db>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-i">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-i">pathflowai-preprocess-remove_basename_from_db command line option</a>
</li>
</ul></li>
<li>
-i, --mask_dir <mask_dir>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-i">pathflowai-preprocess-alter_masks command line option</a>
</li>
</ul></li>
<li>
-it, --intensity_threshold <intensity_threshold>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-it">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-l, --local_smoothing <local_smoothing>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-l">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
<li>
-m, --model_pkl <model_pkl>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-m">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
<li>
-ma, --max_background_area <max_background_area>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-ma">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-ma">pathflowai-visualize-plot_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-ma">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-mpl, --mpl_scatter
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-mpl">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-mth, --method <method>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-mth">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li>
-nn, --n_neighbors <n_neighbors>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-nn">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-nn">pathflowai-visualize-plot_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-nn">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-npy, --img2npy
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-npy">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-ns, --n_samples <n_samples>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-ns">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
<li>
-o, --output_dir <output_dir>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-o">pathflowai-preprocess-alter_masks command line option</a>
</li>
</ul></li>
<li>
-o, --output_patch_db <output_patch_db>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-o">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-o">pathflowai-preprocess-remove_basename_from_db command line option</a>
</li>
</ul></li>
<li>
-o, --outputfilename <outputfilename>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-o">pathflowai-visualize-overlay_new_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-o">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-o">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
<li>
-o, --outputfname <outputfname>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-o">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-o">pathflowai-visualize-plot_image command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-o">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-o, --plotly_output_file <plotly_output_file>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-o">pathflowai-visualize-plot_embeddings command line option</a>
</li>
</ul></li>
<li>
-ocf, --original_compression_factor <original_compression_factor>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-ocf">pathflowai-visualize-overlay_new_annotations command line option</a>
</li>
</ul></li>
<li>
-odb, --out_db <out_db>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-odb">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-p, --patch_info_file <patch_info_file>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-p">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-p">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-p, --pred_out <pred_out>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-p">pathflowai-visualize-shapley_plot command line option</a>
</li>
</ul></li>
<li>
-pa, --patches
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-pa">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-pr, --preprocess
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-pr">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-ps, --patch_size <patch_size>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-ps">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-ps">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-ps">pathflowai-preprocess-remove_basename_from_db command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-ps">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-ps">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-rb, --remove_background_annotation <remove_background_annotation>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-rb">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-rb">pathflowai-visualize-plot_embeddings command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-rb">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-s, --segmentation
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-s">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-s">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-sc, --n_segmentation_classes <n_segmentation_classes>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-sc">pathflowai-visualize-extract_patch command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-sc">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-sc, --sort_col <sort_col>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-sc">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-sf, --scaling_factor <scaling_factor>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-sf">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-sm, --sort_mode <sort_mode>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-sm">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
<li>
-t, --threshold <threshold>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-t">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-tc, --target_segmentation_class <target_segmentation_class>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-tc">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-tif, --tif_file
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-tif">pathflowai-visualize-plot_predictions command line option</a>
</li>
</ul></li>
<li>
-to, --to_annotations <to_annotations>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-to">pathflowai-preprocess-alter_masks command line option</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-to">pathflowai-preprocess-collapse_annotations command line option</a>
</li>
</ul></li>
<li>
-tt, --target_threshold <target_threshold>
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-tt">pathflowai-preprocess-preprocess_pipeline command line option</a>
</li>
</ul></li>
<li>
-tt, --total_time <total_time>
<ul>
<li><a href="index.html#cmdoption-pathflowai-monitor-monitor-usage-tt">pathflowai-monitor-monitor_usage command line option</a>
</li>
</ul></li>
<li>
-x, --x <x>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-x">pathflowai-visualize-extract_patch command line option</a>
</li>
</ul></li>
<li>
-y, --y <y>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-y">pathflowai-visualize-extract_patch command line option</a>
</li>
</ul></li>
<li>
-z, --zoom <zoom>
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-z">pathflowai-visualize-plot_image_umap_embeddings command line option</a>
</li>
</ul></li>
</ul></td>
</tr></table>
<h2 id="A">A</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.visualize.PredictionPlotter.add_custom_segmentation">add_custom_segmentation() (pathflowai.visualize.PredictionPlotter method)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PlotlyPlot.add_plot">add_plot() (pathflowai.visualize.PlotlyPlot method)</a>
</li>
<li><a href="index.html#pathflowai.utils.add_purple_mask">add_purple_mask() (in module pathflowai.utils)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.adjust_mask">adjust_mask() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.visualize.annotation2rgb">annotation2rgb() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.losses.assert_">assert_() (in module pathflowai.losses)</a>
</li>
</ul></td>
</tr></table>
<h2 id="B">B</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset.binarize_annotations">binarize_annotations() (pathflowai.datasets.DynamicImageDataset method)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.visualize.blend">blend() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.utils.boxes2interior">boxes2interior() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="C">C</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.class2one_hot">class2one_hot() (in module pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset.concat">concat() (pathflowai.datasets.DynamicImageDataset method)</a>
</li>
<li><a href="index.html#pathflowai.schedulers.CosineAnnealingWithRestartsLR">CosineAnnealingWithRestartsLR (class in pathflowai.schedulers)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.create_purple_mask">create_purple_mask() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.create_sparse_annotation_arrays">create_sparse_annotation_arrays() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.create_train_val_test">create_train_val_test() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.datasets.create_transforms">create_transforms() (in module pathflowai.datasets)</a>
</li>
</ul></td>
</tr></table>
<h2 id="D">D</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.df2sql">df2sql() (in module pathflowai.utils)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.dir2images">dir2images() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset">DynamicImageDataset (class in pathflowai.datasets)</a>
</li>
</ul></td>
</tr></table>
<h2 id="E">E</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.eq">eq() (in module pathflowai.losses)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.extract_patch_information">extract_patch_information() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="F">F</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.fix_name">fix_name() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.fix_names">fix_names() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.losses.flatten_samples">flatten_samples() (in module pathflowai.losses)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.FocalLoss">FocalLoss (class in pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.losses.FocalLoss.forward">forward() (pathflowai.losses.FocalLoss method)</a>
<ul>
<li><a href="index.html#pathflowai.losses.GeneralizedDiceLoss.forward">(pathflowai.losses.GeneralizedDiceLoss method)</a>
</li>
</ul></li>
</ul></td>
</tr></table>
<h2 id="G">G</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.GeneralizedDice">GeneralizedDice (class in pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.losses.GeneralizedDiceLoss">GeneralizedDiceLoss (class in pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PredictionPlotter.generate_image">generate_image() (pathflowai.visualize.PredictionPlotter method)</a>
</li>
<li><a href="index.html#pathflowai.utils.generate_patch_pipeline">generate_patch_pipeline() (in module pathflowai.utils)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset.get_class_weights">get_class_weights() (pathflowai.datasets.DynamicImageDataset method)</a>
</li>
<li><a href="index.html#pathflowai.datasets.get_data_transforms">get_data_transforms() (in module pathflowai.datasets)</a>
</li>
<li><a href="index.html#pathflowai.schedulers.Scheduler.get_lr">get_lr() (pathflowai.schedulers.Scheduler method)</a>
</li>
<li><a href="index.html#pathflowai.datasets.get_normalizer">get_normalizer() (in module pathflowai.datasets)</a>
</li>
<li><a href="index.html#pathflowai.utils.grab_interior_points">grab_interior_points() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="I">I</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.image2coords">image2coords() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.images2coord_dict">images2coord_dict() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.sampler.ImbalancedDatasetSampler">ImbalancedDatasetSampler (class in pathflowai.sampler)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.img2npy_">img2npy_() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.is_coords_in_box">is_coords_in_box() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.is_image_in_boxes">is_image_in_boxes() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.is_valid_patch">is_valid_patch() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="L">L</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.load_dataset">load_dataset() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.load_image">load_image() (in module pathflowai.utils)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.load_process_image">load_process_image() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.load_sql_df">load_sql_df() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="N">N</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.npy2da">npy2da() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="O">O</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.one_hot">one_hot() (in module pathflowai.losses)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.one_hot2dist">one_hot2dist() (in module pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PredictionPlotter.output_image">output_image() (pathflowai.visualize.PredictionPlotter method)</a>
</li>
</ul></td>
</tr></table>
<h2 id="P">P</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.parse_coord_return_boxes">parse_coord_return_boxes() (in module pathflowai.utils)</a>
</li>
<li>
pathflowai-monitor command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-monitor-version">--version</a>
</li>
</ul></li>
<li>
pathflowai-monitor-monitor_usage command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-monitor-monitor-usage-csv">-csv, --records_output_csv <records_output_csv></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-monitor-monitor-usage-dt">-dt, --delay_time <delay_time></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-monitor-monitor-usage-tt">-tt, --total_time <total_time></a>
</li>
</ul></li>
<li>
pathflowai-preprocess command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-version">--version</a>
</li>
</ul></li>
<li>
pathflowai-preprocess-alter_masks command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-fr">-fr, --from_annotations <from_annotations></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-i">-i, --mask_dir <mask_dir></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-o">-o, --output_dir <output_dir></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-alter-masks-to">-to, --to_annotations <to_annotations></a>
</li>
</ul></li>
<li>
pathflowai-preprocess-collapse_annotations command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-fr">-fr, --from_annotations <from_annotations></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-i">-i, --input_patch_db <input_patch_db></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-ma">-ma, --max_background_area <max_background_area></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-o">-o, --output_patch_db <output_patch_db></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-ps">-ps, --patch_size <patch_size></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-rb">-rb, --remove_background_annotation <remove_background_annotation></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-collapse-annotations-to">-to, --to_annotations <to_annotations></a>
</li>
</ul></li>
<li>
pathflowai-preprocess-preprocess_pipeline command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-a">-a, --annotations <annotations></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-am">-am, --adjust_mask</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-b">-b, --basename <basename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-bp">-bp, --basic_preprocess</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-g">-g, --generate_finetune_segmentation</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-i">-i, --input_dir <input_dir></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-it">-it, --intensity_threshold <intensity_threshold></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-nn">-nn, --n_neighbors <n_neighbors></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-npy">-npy, --img2npy</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-odb">-odb, --out_db <out_db></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-pa">-pa, --patches</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-pr">-pr, --preprocess</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-ps">-ps, --patch_size <patch_size></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-t">-t, --threshold <threshold></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-tc">-tc, --target_segmentation_class <target_segmentation_class></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-preprocess-pipeline-tt">-tt, --target_threshold <target_threshold></a>
</li>
</ul></li>
<li>
pathflowai-preprocess-remove_basename_from_db command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-b">-b, --basename <basename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-i">-i, --input_patch_db <input_patch_db></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-o">-o, --output_patch_db <output_patch_db></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-preprocess-remove-basename-from-db-ps">-ps, --patch_size <patch_size></a>
</li>
</ul></li>
<li>
pathflowai-visualize command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-version">--version</a>
</li>
</ul></li>
<li>
pathflowai-visualize-extract_patch command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-b">-b, --basename <basename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-c">-c, --custom_segmentation <custom_segmentation></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-i">-i, --input_dir <input_dir></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-o">-o, --outputfname <outputfname></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-p">-p, --patch_info_file <patch_info_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-ps">-ps, --patch_size <patch_size></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-s">-s, --segmentation</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-sc">-sc, --n_segmentation_classes <n_segmentation_classes></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-x">-x, --x <x></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-extract-patch-y">-y, --y <y></a>
</li>
</ul></li>
<li>
pathflowai-visualize-overlay_new_annotations command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-a">-a, --annotation_txt <annotation_txt></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-cf">-cf, --compression_factor <compression_factor></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-i">-i, --img_file <img_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-o">-o, --outputfilename <outputfilename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-overlay-new-annotations-ocf">-ocf, --original_compression_factor <original_compression_factor></a>
</li>
</ul></li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li>
pathflowai-visualize-plot_embeddings command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-a">-a, --annotations <annotations></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-b">-b, --basename <basename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-i">-i, --embeddings_file <embeddings_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-ma">-ma, --max_background_area <max_background_area></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-nn">-nn, --n_neighbors <n_neighbors></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-o">-o, --plotly_output_file <plotly_output_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-embeddings-rb">-rb, --remove_background_annotation <remove_background_annotation></a>
</li>
</ul></li>
<li>
pathflowai-visualize-plot_image command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-cf">-cf, --compression_factor <compression_factor></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-i">-i, --image_file <image_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-o">-o, --outputfname <outputfname></a>
</li>
</ul></li>
<li>
pathflowai-visualize-plot_image_umap_embeddings command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-b">-b, --basename <basename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-e">-e, --embeddings_file <embeddings_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-i">-i, --input_dir <input_dir></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-ma">-ma, --max_background_area <max_background_area></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-mpl">-mpl, --mpl_scatter</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-nn">-nn, --n_neighbors <n_neighbors></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-o">-o, --outputfilename <outputfilename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-rb">-rb, --remove_background_annotation <remove_background_annotation></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-sc">-sc, --sort_col <sort_col></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-sm">-sm, --sort_mode <sort_mode></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-image-umap-embeddings-z">-z, --zoom <zoom></a>
</li>
</ul></li>
<li>
pathflowai-visualize-plot_predictions command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-ac">-ac, --annotation_col <annotation_col></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-al">-al, --alpha <alpha></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-an">-an, --annotations</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-b">-b, --basename <basename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-c">-c, --custom_segmentation <custom_segmentation></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-cf">-cf, --compression_factor <compression_factor></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-i">-i, --input_dir <input_dir></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-o">-o, --outputfname <outputfname></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-p">-p, --patch_info_file <patch_info_file></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-ps">-ps, --patch_size <patch_size></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-s">-s, --segmentation</a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-sc">-sc, --n_segmentation_classes <n_segmentation_classes></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-sf">-sf, --scaling_factor <scaling_factor></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-plot-predictions-tif">-tif, --tif_file</a>
</li>
</ul></li>
<li>
pathflowai-visualize-shapley_plot command line option
<ul>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-bs">-bs, --batch_size <batch_size></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-l">-l, --local_smoothing <local_smoothing></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-m">-m, --model_pkl <model_pkl></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-mth">-mth, --method <method></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-ns">-ns, --n_samples <n_samples></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-o">-o, --outputfilename <outputfilename></a>
</li>
<li><a href="index.html#cmdoption-pathflowai-visualize-shapley-plot-p">-p, --pred_out <pred_out></a>
</li>
</ul></li>
<li><a href="index.html#module-pathflowai.datasets">pathflowai.datasets (module)</a>
</li>
<li><a href="index.html#module-pathflowai.losses">pathflowai.losses (module)</a>
</li>
<li><a href="index.html#module-pathflowai.sampler">pathflowai.sampler (module)</a>
</li>
<li><a href="index.html#module-pathflowai.schedulers">pathflowai.schedulers (module)</a>
</li>
<li><a href="index.html#module-pathflowai.utils">pathflowai.utils (module)</a>
</li>
<li><a href="index.html#module-pathflowai.visualize">pathflowai.visualize (module)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PlotlyPlot.plot">plot() (pathflowai.visualize.PlotlyPlot method)</a>
</li>
<li><a href="index.html#pathflowai.visualize.plot_image_">plot_image_() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.visualize.plot_shap">plot_shap() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.visualize.plot_umap_images">plot_umap_images() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PlotlyPlot">PlotlyPlot (class in pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PredictionPlotter">PredictionPlotter (class in pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.visualize.prob2rbg">prob2rbg() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.utils.process_svs">process_svs() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="R">R</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.datasets.RandomRotate90">RandomRotate90() (in module pathflowai.datasets)</a>
</li>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset.retain_ID">retain_ID() (pathflowai.datasets.DynamicImageDataset method)</a>
</li>
<li><a href="index.html#pathflowai.utils.retain_images">retain_images() (in module pathflowai.utils)</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.return_image_coord">return_image_coord() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.return_image_in_boxes_dict">return_image_in_boxes_dict() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.visualize.PredictionPlotter.return_patch">return_patch() (pathflowai.visualize.PredictionPlotter method)</a>
</li>
<li><a href="index.html#pathflowai.utils.run_preprocessing_pipeline">run_preprocessing_pipeline() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="S">S</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.utils.save_all_patch_info">save_all_patch_info() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.utils.save_dataset">save_dataset() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.schedulers.Scheduler">Scheduler (class in pathflowai.schedulers)</a>
</li>
<li><a href="index.html#pathflowai.visualize.seg2rgb">seg2rgb() (in module pathflowai.visualize)</a>
</li>
<li><a href="index.html#pathflowai.utils.segmentation_predictions2npy">segmentation_predictions2npy() (in module pathflowai.utils)</a>
</li>
<li><a href="index.html#pathflowai.datasets.segmentation_transform">segmentation_transform() (in module pathflowai.datasets)</a>
</li>
<li><a href="index.html#pathflowai.losses.ShapeError">ShapeError</a>
</li>
</ul></td>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.simplex">simplex() (in module pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset.split_by_ID">split_by_ID() (pathflowai.datasets.DynamicImageDataset method)</a>
</li>
<li><a href="index.html#pathflowai.losses.sset">sset() (in module pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.schedulers.Scheduler.step">step() (pathflowai.schedulers.Scheduler method)</a>
</li>
<li><a href="index.html#pathflowai.datasets.DynamicImageDataset.subsample">subsample() (pathflowai.datasets.DynamicImageDataset method)</a>
</li>
<li><a href="index.html#pathflowai.losses.SurfaceLoss">SurfaceLoss (class in pathflowai.losses)</a>
</li>
<li><a href="index.html#pathflowai.utils.svs2dask_array">svs2dask_array() (in module pathflowai.utils)</a>
</li>
</ul></td>
</tr></table>
<h2 id="T">T</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.visualize.to_pil">to_pil() (in module pathflowai.visualize)</a>
</li>
</ul></td>
</tr></table>
<h2 id="U">U</h2>
<table style="width: 100%" class="indextable genindextable"><tr>
<td style="width: 33%; vertical-align: top;"><ul>
<li><a href="index.html#pathflowai.losses.uniq">uniq() (in module pathflowai.losses)</a>
</li>
</ul></td>
</tr></table>
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