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Avoid heatmap config default causing error #63

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Avoid heatmap config default causing error #63

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2 changes: 1 addition & 1 deletion config/config.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -41,7 +41,7 @@ umap:
heatmap:
metrics: ['correlation','cosine']
hclust_methods: ['complete']
n_observations: 1000 # random sampled proportion float (0-1] or absolute number as integer
n_observations: 1 # random sampled proportion float (0-1] or absolute number as integer
n_features: 0.5 # highly variable features proportion float (0-1] or absolute number as integer

##### LEIDEN #####
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3 changes: 2 additions & 1 deletion workflow/scripts/distance_matrix.py
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Expand Up @@ -41,7 +41,8 @@
if data_or_feature == "observations":
if isinstance(n_observations, float) or n_observations==1:
n_observations = int(math.floor(n_observations * data.shape[0]))
data = data.sample(n=n_observations, random_state=42)
if n_observations < data.shape[0]:
data = data.sample(n=n_observations, random_state=42)

# Convert DataFrame to NumPy array
# data_np = data.to_numpy()
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