dotools_py.dt.standard_ct_labels_heart

dotools_py.dt.standard_ct_labels_heart()

Set common cell-type labels in the Human Heart Model from Celltypist.

This set a common an informative label for the cell-types in the heart model. For example, instead of using EC1_cap, EC3_cap, the common label CapEC can be used. The nature of the subtypes of cell-types needs to be investigated on the dataset. The model might assigned a cell-type based on similarity, however, the assignment might be incorrect if the cell-type is not present in the model.

Return type:

dict

Returns:

Returns a dictionary with the labels from the model as keys and the updated labels as values.

Example

>>> import dotools_py as do
>>> labels = do.dt.standard_ct_labels_heart()
>>> labels
{'PC1_vent': 'Pericytes',
'SMC1_basic': 'SMC',
'SMC2_art': 'SMC',
'CD16+Mo': 'Ccr2_MP',
'LYVE1+IGF1+MP': 'MP',
'B_plasma': 'B_cells',
'B': 'B_cells',
'CD4+T_naive':
'T_cells',
'EC1_cap': 'CapEC',
'EC3_cap': 'CapEC',
'EC5_art': 'ArtEC',
'EC6_ven': 'VeinEC',
'EC7_endocardial': 'EndoEC',
'EC8_ln': 'LymphEC',
'FB3': 'Fibroblasts',
'FB4_activated': 'Fibro_activ',
'FB5': 'Fibroblasts',
'Meso': 'Epi_cells',
'vCM1': 'CM',
'Adip1': 'Adip',
'NC1_glial': 'Neural',
'LYVE1+TIMD4+MP': 'MP',
'MoMP': 'MP',
'DC': 'Dendritic',
'Mast': 'Mast',
'FB1': 'Fibroblasts',
'CD8+T_trans': 'T_cells',
'vCM4': 'CM',
'NC2_glial_NGF+': 'NC_glial_NGF+',
'NK_CD16hi': 'NK'
}