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Edit and run



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import os
import tqdm



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# --------------------------------
# -------- User input ------------
# --------------------------------

# Specify path to exported landmark data
lmpath = os.path.absolute('landmark.csv')



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# Load landmarks from csv
oldlm = pd.read_csv(lmpath)

We will sort landmark data according to stype and organize it in a two tiered dictionary according to sample type (s) and channel (c).



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Dlm = {}
for stype in tqdm.tqdm(oldlm.stype.unique()):
    # These two lines may need to be modified based on stype structure
    s = stype.split('_')[0]
    c = stype.split('_')[1]
    
    # Add sample type dictionary if not already present
    if s not in Dlm.keys():
        Dlm[s] = {}
    
    # Save sample specific landmark data to dictionary
    Dlm[s][c] = oldlm[oldlm.stype==stype]