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Don't trim alleles when ref == alt for SPDI normalization
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utilities/SPDI_Normalization.py

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -110,5 +110,5 @@ def get_normalized_spdi(acc, pos, ref, alt):
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alleles=(None, alt),
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mode=NormalizationMode.EXPAND,
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anchor_length=0,
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trim=True)
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trim=ref != alt)
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return (f"{acc}:{new_ival[0]}:{new_alleles[0]}:{new_alleles[1]}")

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