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Change input to S_Dbw from DataFrame to numpy array #2

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Change input to S_Dbw from DataFrame to numpy array #2

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26d7822
Change input to S_Dbw from DataFrame to numpy array
atharva-bhagwat Jan 24, 2024
18ed00d
Update Niche composition.ipynb color -> palette
atharva-bhagwat Jan 24, 2024
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6 changes: 3 additions & 3 deletions SOAPy_st/tl/utils.py
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Original file line number Diff line number Diff line change
Expand Up @@ -50,8 +50,8 @@ def _best_k(data, k, sdbw):
if data.shape[0] <= k_i:
break
km = KMeans(n_clusters=k_i)
clusters_res = km.fit_predict(data)
s_Dbw[k_i] = S_Dbw(data, clusters_res)
clusters_res = km.fit_predict(data.values)
s_Dbw[k_i] = S_Dbw(data.values, clusters_res)

min_k = list(s_Dbw.keys())[list(s_Dbw.values()).index(min(list(s_Dbw.values())))]
else:
Expand Down Expand Up @@ -323,4 +323,4 @@ def allocation_edge_2_diff_cell_type(edges, k_max=10000, error=0.001):
matrix[residue_index, i] = matrix[i, residue_index] = \
residue_edge * matrix[i, residue_index] / (edges[residue_index] - residue_edge)

return matrix
return matrix
884 changes: 442 additions & 442 deletions source/Tutorials/Niche composition.ipynb
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