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Add numerical stability to HMM weight calculation #53

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adrianodemarino wants to merge 2 commits into from
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Add numerical stability to HMM weight calculation #53

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9e029e2
Add numerical stability to HMM weight calculation, prevent division b…
adrianodemarino Aug 25, 2025
42a85a7
removing sum == 0
adrianodemarino Aug 25, 2025
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2 changes: 1 addition & 1 deletion modules/hmm_utils.py
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Original file line number Diff line number Diff line change
Expand Up @@ -157,7 +157,7 @@ def run(self) -> None:
)
weights[-2, :] = weights[-1, :]

weights = weights / weights.sum(axis=1, keepdims=True)
weights = np.round(weights / weights.sum(axis=1, keepdims=True), 8)
weights[weights < 1 / (self.matches.size + 1)] = 0

# create sparse matrix of entire reference panel
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4 changes: 2 additions & 2 deletions pyproject.toml
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@@ -1,6 +1,6 @@
[tool.poetry]
name = "selphi"
version = "1.5.2"
version = "1.5.3"
description = "Genotype imputation using PBWT and haplotype selection"
authors = ["Adriano De Marino <adriano@selfdecode.com>", "Sandra Bohn <sandra@selfdecode.com>"]
readme = "README.md"
Expand All @@ -15,5 +15,5 @@ requires = ["poetry-core"]
build-backend = "poetry.core.masonry.api"

[tool.commitizen]
version = "1.5.2"
version = "1.5.3"
version_files = ["pyproject.toml:version"]