Title

Paragraph 1 : introduction of the analysis tool and algorithms.

import stereo as st

# Other necessary imports

Demo Data

Paragraph 2 : description of demo data, including but not limited to species, tissue, related paper, etc.

# option 1 : upload data to our demo library
# option 2 : offer a public URL for download

Perform Function

Paragraph 3 : main steps to perform the function.

# preoprocessing
data.tl.cal_qc()
data.tl.filter_genes()
...

# clustering
data.tl.pca()
data.tl.neighbors()
data.tl.umap()
data.tl.leiden()
...

# seprating preprocessing and clustering from the whole script cell would be a better choice

# run function
data.tl.target_function(
        parameter1 = number1,
        parameter2 = string1,
         ...
        )

Display Results [optional]

Paragraph 4 : display dimensions and meaning of output data.

# data.cells.to_df()
# data.genes.to_df()
# data.tl.result
# ...

Visualization [optional]

Paragraph 5 : interpret the static or interactive plots.

# data.plt.target_plotting_method()

Note

Detailed and elaborate introduction.

Attention

Highlight information.

Warning

Warning notification of the special scenario, error or something related.

More

Link to another part.