init_edata

Function

crisgi_obj.init_edata(test_obss, headers)

Initializes the edata attribute for the object by extracting and organizing observation and interaction data from the underlying AnnData structure. This function prepares a new AnnData object (edata) containing selected observations and gene-gene interaction information, and sets it as an attribute for downstream analysis.

Parameters

Name	Type	Description
test_obss	list of list	A list where each element is a list of observation indices or labels to include (test populations).
headers	list of str	List of column names from the observation metadata to retain in edata.obs.

Return type

None

Returns

This function does not return a value. It sets the edata attribute on the object with a new AnnData instance containing the selected observations and interaction data.

Attributes Set

• self.edata: AnnData
  The newly created AnnData object containing the selected observations and gene-gene interaction information.

Example

# Suppose `crisgi_obj` is an instance of the class containing `init_edata`
# test_obss is a list of lists of observation indices or labels (test populations)
test_obss = [
        ['cell_1', 'cell_2'],
        ['cell_3', 'cell_4']
]
# headers are the columns to keep from the observation metadata
headers = ['test', 'group']

crisgi_obj.init_edata(test_obss, headers)

# After calling, crisgi_obj.edata will be available for further analysis:
print(crisgi_obj.edata.shape)  # (number of observations, number of interactions)
print(crisgi_obj.edata.obs.head())  # Shows the selected observation metadata
print(crisgi_obj.edata.var.head())  # Shows gene interaction information