def tab_content(active_tab):
if active_tab == "tab-qc":
fig_qc = st.plot_qc(adata,
jitter=0.2,
fig_size=(2, 2),
return_svg=True)
return html.Img(
src="data:image/svg+xml;base64,{}".format(fig_qc)), card_qc
elif active_tab == "tab-dr":
return html.Div(id="dr-graphic"), card_dr
elif active_tab == "tab-sp":
return html.Div(id="st-graphic"), card_sp
else:
fig = st.plot_stream(adata, root='S1', return_svg=True)
return card_content_ds, card_ds
from dash.dependencies import Input, Output
import dash_bootstrap_components as dbc
import numpy as np
import stream as st
import matplotlib
matplotlib.use('Agg')
from app import app
adata = st.read(file_name='./SampleData/Nestorowa_2016/Nestorowa-2016.pkl',
workdir='./stream_result')
adata.uns[
'discription'] = 'This scRNA-seq dataset contains 1656 cells and 4768 genes from mouse hematopoietic stem and progenitor cell differentiation. A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation. Blood 128, e20-31 (2016).'
fig_qc = st.plot_qc(adata, jitter=0.2, fig_size=(2, 2), return_svg=True)
available_samples = [
'Nestorowa, S. et al. 2016', 'Harrison, S. et al. 2021',
'Trapnell, C. et al. 2014', ' Tang, Q. et al. 2017'
]
available_projections = [
'dimension_reduction', 'visualization_2D', 'flat_tree', 'branches'
]
available_colors = adata.obs.columns
available_stream = ['single_cell_stream', 'stream']
layout = html.Div([
dbc.Container([
dbc.Col(html.H1("Visualization", className="text-center"),
className="mb-5 mt-5"),
className="card-title",
style={'textAlign': 'center'}),
html.P(adata.uns['discription']),
dbc.Row(
[dbc.Col(card_assay),
dbc.Col(card_cell),
dbc.Col(card_feature)],
className="mb-4",
)
]),
], )
# Pre
fig_qc = st.plot_qc(adata_computed,
size=0,
jitter=0,
fig_size=(2, 2),
return_svg=True)
card_C_qc_finished = dbc.FormGroup([
html.Img(src="data:image/svg+xml;base64,{}".format(fig_qc),
style={
'width': '100%',
'height': '400px',
'lineHeight': '400px',
'borderWidth': '1px',
'borderStyle': 'dashed',
'borderRadius': '5px',
'textAlign': 'center',
}),
dbc.CardBody([