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Runtime error
Runtime error
Commit ·
d94afa1
1
Parent(s): b717bd9
fix hic hvg
Browse files
app.py
CHANGED
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@@ -56,10 +56,11 @@ color_map = {**color_map, **sorted_color_map, **rna_color_map}
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color_map['Other'] = 'gray'
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hic = ad.read_h5ad(hic_file)
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print(hic)
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print('Loading prior knowledge graph...')
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prior = nx.read_graphml(graph_file)
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scglue.models.configure_dataset(hic, "NB", use_highly_variable=True)
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glue = scglue.models.load_model(model_file)
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@@ -84,8 +85,8 @@ for i, gene in enumerate(genes):
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peaks = hic.var.query("highly_variable")
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rna_recon = glue.decode_data("rna", "rna", rna, prior)
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hic_recon = glue.decode_data("hic", "hic", hic, prior)
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print(rna_recon.shape
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def get_closest_peak_to_gene(gene_name, rna, peaks):
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color_map['Other'] = 'gray'
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hic = ad.read_h5ad(hic_file)
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hic.var["highly_variable"] = hic.var[f"{prior_name}_highly_variable"]
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print(hic)
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print('Loading prior knowledge graph...')
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prior = nx.read_graphml(graph_file)
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#scglue.models.configure_dataset(hic, "NB", use_highly_variable=True)
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glue = scglue.models.load_model(model_file)
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peaks = hic.var.query("highly_variable")
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rna_recon = glue.decode_data("rna", "rna", rna, prior)
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#hic_recon = glue.decode_data("hic", "hic", hic, prior)
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print(rna_recon.shape)
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def get_closest_peak_to_gene(gene_name, rna, peaks):
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