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Update pages/d101110xflex.py
Browse files- pages/d101110xflex.py +82 -82
pages/d101110xflex.py
CHANGED
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@@ -113,51 +113,51 @@ tab1_content = html.Div([
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options=df.columns),
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html.Label("N Genes by Counts"),
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dcc.RangeSlider(
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id='range-
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step=250,
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value=[min_value, max_value],
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marks={i: str(i) for i in range(min_value, max_value + 1, 250)},
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),
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dcc.Input(id='min-
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dcc.Input(id='max-
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html.Label("Total Counts"),
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dcc.RangeSlider(
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id='range-
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step=7500,
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value=[min_value_2, max_value_2],
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marks={i: str(i) for i in range(min_value_2, max_value_2 + 1, 7500)},
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),
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dcc.Input(id='min-
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dcc.Input(id='max-
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html.Label("Percent Mitochondrial Genes"),
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dcc.RangeSlider(
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id='range-
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step=5,
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min=0,
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max=100,
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value=[min_value_3, max_value_3],
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),
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dcc.Input(id='min-
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dcc.Input(id='max-
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html.Div([
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dcc.Graph(id='pie-
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dcc.Graph(id='my-
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className='four columns',config=config_fig
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),
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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])
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# Create the second tab content with scatter-
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tab2_content = html.Div([
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html.Div([
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html.Label("S-cycle genes"),
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@@ -215,20 +215,20 @@ tab2_content = html.Div([
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]),
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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])
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# Create the second tab content with scatter-
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tab3_content = html.Div([
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html.Div([
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html.Label("UMAP condition 1"),
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@@ -238,23 +238,23 @@ tab3_content = html.Div([
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dcc.Dropdown(id='dpdn6', value="n_genes_by_counts", multi=False,
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options=df.columns),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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html.Div([
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dcc.Graph(id='my-
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className='four columns',config=config_fig
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)
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]),
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]),
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])
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# html.Div([
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# dcc.Graph(id='scatter-
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# ]),
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@@ -265,7 +265,7 @@ tab4_content = html.Div([
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options=df.columns),
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]),
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html.Div([
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dcc.Graph(id='scatter-
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]),
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])
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@@ -284,63 +284,63 @@ layout = html.Div([
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# Define the circular callback
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@callback(
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Output("min-
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Output("max-
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Output("min-
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Output("max-
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Output("min-
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Output("max-
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Input("min-
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Input("max-
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Input("min-
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Input("max-
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Input("min-
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Input("max-
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prevent_initial_call=True
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)
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def circular_callback(min_1, max_1, min_2, max_2, min_3, max_3):
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return min_1, max_1, min_2, max_2, min_3, max_3
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@callback(
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Output('range-
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Output('range-
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Output('range-
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Input('min-
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Input('max-
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Input('min-
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Input('max-
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Input('min-
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Input('max-
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prevent_initial_call=True
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)
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def update_slider_values(min_1, max_1, min_2, max_2, min_3, max_3):
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return [min_1, max_1], [min_2, max_2], [min_3, max_3]
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@callback(
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Output(component_id='my-
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Output(component_id='pie-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='scatter-
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Output(component_id='my-
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Input(component_id='dpdn2', component_property='value'),
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Input(component_id='dpdn3', component_property='value'),
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Input(component_id='dpdn4', component_property='value'),
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Input(component_id='dpdn5', component_property='value'),
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Input(component_id='dpdn6', component_property='value'),
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Input(component_id='dpdn7', component_property='value'),
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Input(component_id='range-
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Input(component_id='range-
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Input(component_id='range-
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prevent_initial_call=True
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)
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@@ -362,7 +362,7 @@ def update_graph_and_pie_chart(col_chosen, s_chosen, g2m_chosen, condition1_chos
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dff = dff.sort(col_chosen)
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# Plot figures
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color=col_chosen, hover_name=col_chosen,template="seaborn")
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# Cache commonly used subexpressions
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@@ -417,70 +417,70 @@ def update_graph_and_pie_chart(col_chosen, s_chosen, g2m_chosen, condition1_chos
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#expression_means = expression_means.select(["batch", "Gene", "Expression"] + condition3_chosen)
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category_counts = category_counts.sort(col_chosen)
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-
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#labels = category_counts[col_chosen].to_list()
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#values = category_counts["normalized_count"].to_list()
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# Create the scatter plots
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch', title="S-cycle gene:",template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch', title="G2M-cycle gene:",template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch', title="S score:",template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch', title="G2M score:",template="seaborn")
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# Sort values of custom in-between
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dff = dff.sort(condition1_chosen)
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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#labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name='batch',template="seaborn")
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-
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size="percentage", size_max = 20,
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#labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
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hover_name=col_chosen,template="seaborn")
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-
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color=condition1_chosen, hover_name=condition1_chosen,template="seaborn")
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-
return
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# Set http://localhost:5000/ in web browser
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# Now create your regular FASTAPI application
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options=df.columns),
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html.Label("N Genes by Counts"),
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dcc.RangeSlider(
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id='range-slider_db2-1',
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step=250,
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value=[min_value, max_value],
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marks={i: str(i) for i in range(min_value, max_value + 1, 250)},
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),
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dcc.Input(id='min-slider_db2-1', type='number', value=min_value, debounce=True),
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dcc.Input(id='max-slider_db2-1', type='number', value=max_value, debounce=True),
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html.Label("Total Counts"),
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dcc.RangeSlider(
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id='range-slider_db2-2',
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step=7500,
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value=[min_value_2, max_value_2],
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marks={i: str(i) for i in range(min_value_2, max_value_2 + 1, 7500)},
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),
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dcc.Input(id='min-slider_db2-2', type='number', value=min_value_2, debounce=True),
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dcc.Input(id='max-slider_db2-2', type='number', value=max_value_2, debounce=True),
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html.Label("Percent Mitochondrial Genes"),
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dcc.RangeSlider(
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id='range-slider_db2-3',
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step=5,
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min=0,
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max=100,
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value=[min_value_3, max_value_3],
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),
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dcc.Input(id='min-slider_db2-3', type='number', value=min_value_3, debounce=True),
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dcc.Input(id='max-slider_db2-3', type='number', value=max_value_3, debounce=True),
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html.Div([
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dcc.Graph(id='pie-graph_db2', figure={}, className='four columns',config=config_fig),
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dcc.Graph(id='my-graph_db2', figure={}, clickData=None, hoverData=None,
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className='four columns',config=config_fig
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),
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dcc.Graph(id='scatter-plot_db2', figure={}, className='four columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-2', figure={}, className='four columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-3', figure={}, className='four columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-4', figure={}, className='four columns',config=config_fig)
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]),
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])
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# Create the second tab content with scatter-plot_db2-5 and scatter-plot_db2-6
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tab2_content = html.Div([
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html.Div([
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html.Label("S-cycle genes"),
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]),
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-5', figure={}, className='three columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-6', figure={}, className='three columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-7', figure={}, className='three columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-8', figure={}, className='three columns',config=config_fig)
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]),
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])
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+
# Create the second tab content with scatter-plot_db2-5 and scatter-plot_db2-6
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tab3_content = html.Div([
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html.Div([
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html.Label("UMAP condition 1"),
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dcc.Dropdown(id='dpdn6', value="n_genes_by_counts", multi=False,
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options=df.columns),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-9', figure={}, className='four columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-10', figure={}, className='four columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-11', figure={}, className='four columns',config=config_fig)
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]),
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html.Div([
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dcc.Graph(id='my-graph_db22', figure={}, clickData=None, hoverData=None,
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className='four columns',config=config_fig
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)
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]),
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]),
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])
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# html.Div([
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# dcc.Graph(id='scatter-plot_db2-12', figure={}, className='four columns',config=config_fig)
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# ]),
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options=df.columns),
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]),
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html.Div([
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dcc.Graph(id='scatter-plot_db2-12', figure={}, className='four columns',config=config_fig)
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]),
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])
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# Define the circular callback
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@callback(
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Output("min-slider_db2-1", "value", allow_duplicate=True),
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Output("max-slider_db2-1", "value", allow_duplicate=True),
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+
Output("min-slider_db2-2", "value", allow_duplicate=True),
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+
Output("max-slider_db2-2", "value", allow_duplicate=True),
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+
Output("min-slider_db2-3", "value", allow_duplicate=True),
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+
Output("max-slider_db2-3", "value", allow_duplicate=True),
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+
Input("min-slider_db2-1", "value"),
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| 294 |
+
Input("max-slider_db2-1", "value"),
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| 295 |
+
Input("min-slider_db2-2", "value"),
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| 296 |
+
Input("max-slider_db2-2", "value"),
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| 297 |
+
Input("min-slider_db2-3", "value"),
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+
Input("max-slider_db2-3", "value"),
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prevent_initial_call=True
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)
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def circular_callback(min_1, max_1, min_2, max_2, min_3, max_3):
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return min_1, max_1, min_2, max_2, min_3, max_3
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@callback(
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Output('range-slider_db2-1', 'value', allow_duplicate=True),
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Output('range-slider_db2-2', 'value', allow_duplicate=True),
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+
Output('range-slider_db2-3', 'value', allow_duplicate=True),
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+
Input('min-slider_db2-1', 'value'),
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+
Input('max-slider_db2-1', 'value'),
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| 310 |
+
Input('min-slider_db2-2', 'value'),
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| 311 |
+
Input('max-slider_db2-2', 'value'),
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+
Input('min-slider_db2-3', 'value'),
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+
Input('max-slider_db2-3', 'value'),
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prevent_initial_call=True
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)
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def update_slider_values(min_1, max_1, min_2, max_2, min_3, max_3):
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return [min_1, max_1], [min_2, max_2], [min_3, max_3]
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@callback(
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Output(component_id='my-graph_db2', component_property='figure', allow_duplicate=True),
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Output(component_id='pie-graph_db2', component_property='figure', allow_duplicate=True),
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| 322 |
+
Output(component_id='scatter-plot_db2', component_property='figure', allow_duplicate=True),
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+
Output(component_id='scatter-plot_db2-2', component_property='figure', allow_duplicate=True),
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+
Output(component_id='scatter-plot_db2-3', component_property='figure', allow_duplicate=True),
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Output(component_id='scatter-plot_db2-4', component_property='figure', allow_duplicate=True), # Add this new scatter plot
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Output(component_id='scatter-plot_db2-5', component_property='figure', allow_duplicate=True),
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Output(component_id='scatter-plot_db2-6', component_property='figure', allow_duplicate=True),
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| 328 |
+
Output(component_id='scatter-plot_db2-7', component_property='figure', allow_duplicate=True),
|
| 329 |
+
Output(component_id='scatter-plot_db2-8', component_property='figure', allow_duplicate=True),
|
| 330 |
+
Output(component_id='scatter-plot_db2-9', component_property='figure', allow_duplicate=True),
|
| 331 |
+
Output(component_id='scatter-plot_db2-10', component_property='figure', allow_duplicate=True),
|
| 332 |
+
Output(component_id='scatter-plot_db2-11', component_property='figure', allow_duplicate=True),
|
| 333 |
+
Output(component_id='scatter-plot_db2-12', component_property='figure', allow_duplicate=True),
|
| 334 |
+
Output(component_id='my-graph_db22', component_property='figure', allow_duplicate=True),
|
| 335 |
Input(component_id='dpdn2', component_property='value'),
|
| 336 |
Input(component_id='dpdn3', component_property='value'),
|
| 337 |
Input(component_id='dpdn4', component_property='value'),
|
| 338 |
Input(component_id='dpdn5', component_property='value'),
|
| 339 |
Input(component_id='dpdn6', component_property='value'),
|
| 340 |
Input(component_id='dpdn7', component_property='value'),
|
| 341 |
+
Input(component_id='range-slider_db2-1', component_property='value'),
|
| 342 |
+
Input(component_id='range-slider_db2-2', component_property='value'),
|
| 343 |
+
Input(component_id='range-slider_db2-3', component_property='value'),
|
| 344 |
prevent_initial_call=True
|
| 345 |
)
|
| 346 |
|
|
|
|
| 362 |
dff = dff.sort(col_chosen)
|
| 363 |
|
| 364 |
# Plot figures
|
| 365 |
+
fig_violin_db2 = px.violin(data_frame=dff, x=col_chosen, y=col_features, box=True, points="all",
|
| 366 |
color=col_chosen, hover_name=col_chosen,template="seaborn")
|
| 367 |
|
| 368 |
# Cache commonly used subexpressions
|
|
|
|
| 417 |
#expression_means = expression_means.select(["batch", "Gene", "Expression"] + condition3_chosen)
|
| 418 |
category_counts = category_counts.sort(col_chosen)
|
| 419 |
|
| 420 |
+
fig_pie_db2 = px.pie(category_counts, values="normalized_count", names=col_chosen, labels=col_chosen, hole=.3, title=pie_title, template="seaborn")
|
| 421 |
|
| 422 |
#labels = category_counts[col_chosen].to_list()
|
| 423 |
#values = category_counts["normalized_count"].to_list()
|
| 424 |
|
| 425 |
# Create the scatter plots
|
| 426 |
+
fig_scatter_db2 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=col_chosen,
|
| 427 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 428 |
hover_name='batch',template="seaborn")
|
| 429 |
|
| 430 |
+
fig_scatter_db2_2 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=col_mt,
|
| 431 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 432 |
hover_name='batch',template="seaborn")
|
| 433 |
|
| 434 |
+
fig_scatter_db2_3 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=col_features,
|
| 435 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 436 |
hover_name='batch',template="seaborn")
|
| 437 |
|
| 438 |
|
| 439 |
+
fig_scatter_db2_4 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=col_counts,
|
| 440 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 441 |
hover_name='batch',template="seaborn")
|
| 442 |
|
| 443 |
+
fig_scatter_db2_5 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=s_chosen,
|
| 444 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 445 |
hover_name='batch', title="S-cycle gene:",template="seaborn")
|
| 446 |
|
| 447 |
+
fig_scatter_db2_6 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=g2m_chosen,
|
| 448 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 449 |
hover_name='batch', title="G2M-cycle gene:",template="seaborn")
|
| 450 |
|
| 451 |
+
fig_scatter_db2_7 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color="S_score",
|
| 452 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 453 |
hover_name='batch', title="S score:",template="seaborn")
|
| 454 |
|
| 455 |
+
fig_scatter_db2_8 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color="G2M_score",
|
| 456 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 457 |
hover_name='batch', title="G2M score:",template="seaborn")
|
| 458 |
|
| 459 |
# Sort values of custom in-between
|
| 460 |
dff = dff.sort(condition1_chosen)
|
| 461 |
|
| 462 |
+
fig_scatter_db2_9 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=condition1_chosen,
|
| 463 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 464 |
hover_name='batch',template="seaborn")
|
| 465 |
|
| 466 |
+
fig_scatter_db2_10 = px.scatter(data_frame=dff, x='X_umap-0', y='X_umap-1', color=condition2_chosen,
|
| 467 |
labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 468 |
hover_name='batch',template="seaborn")
|
| 469 |
|
| 470 |
+
fig_scatter_db2_11 = px.scatter(data_frame=dff, x=condition1_chosen, y=condition2_chosen, color=condition1_chosen,
|
| 471 |
#labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 472 |
hover_name='batch',template="seaborn")
|
| 473 |
|
| 474 |
+
fig_scatter_db2_12 = px.scatter(data_frame=expression_means, x="Gene", y=col_chosen, color="Mean expression",
|
| 475 |
size="percentage", size_max = 20,
|
| 476 |
#labels={'X_umap-0': 'umap1' , 'X_umap-1': 'umap2'},
|
| 477 |
hover_name=col_chosen,template="seaborn")
|
| 478 |
|
| 479 |
+
fig_violin_db22 = px.violin(data_frame=dff, x=condition1_chosen, y=condition2_chosen, box=True, points="all",
|
| 480 |
color=condition1_chosen, hover_name=condition1_chosen,template="seaborn")
|
| 481 |
|
| 482 |
|
| 483 |
+
return fig_violin_db2, fig_pie_db2, fig_scatter_db2, fig_scatter_db2_2, fig_scatter_db2_3, fig_scatter_db2_4, fig_scatter_db2_5, fig_scatter_db2_6, fig_scatter_db2_7, fig_scatter_db2_8, fig_scatter_db2_9, fig_scatter_db2_10, fig_scatter_db2_11, fig_scatter_db2_12, fig_violin_db22
|
| 484 |
|
| 485 |
# Set http://localhost:5000/ in web browser
|
| 486 |
# Now create your regular FASTAPI application
|