scatrans 0.9.8.dev2__tar.gz → 0.9.8.dev3__tar.gz

{scatrans-0.9.8.dev2 → scatrans-0.9.8.dev3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: scatrans
-Version: 0.9.8.dev2
+Version: 0.9.8.dev3
 Summary: Single-cell Active Transcription Analysis
 Author: scATrans Developers
 License: Apache-2.0

{scatrans-0.9.8.dev2 → scatrans-0.9.8.dev3}/scatrans.egg-info/SOURCES.txt

@@ -4,7 +4,6 @@ CHANGELOG.md
 CITATION.cff
 LICENSE
 MANIFEST.in
-PKG-INFO
 README.md
 conftest.py
 conftest_fixtures.py
@@ -16,7 +15,6 @@ examples/memento_de_example.py
 examples/real_data_template.py
 examples/synthetic_active_transcription.py
 src/scatrans/__init__.py
-src/scatrans/_bias.py
 src/scatrans/_de.py
 src/scatrans/_permutation.py
 src/scatrans/_utils.py

{scatrans-0.9.8.dev2 → scatrans-0.9.8.dev3}/src/scatrans/_version.py

@@ -18,7 +18,7 @@ version_tuple: tuple[int | str, ...]
 commit_id: str | None
 __commit_id__: str | None
 
-__version__ = version = '0.9.8.dev2'
-__version_tuple__ = version_tuple = (0, 9, 8, 'dev2')
+__version__ = version = '0.9.8.dev3'
+__version_tuple__ = version_tuple = (0, 9, 8, 'dev3')
 
 __commit_id__ = commit_id = None

{scatrans-0.9.8.dev2 → scatrans-0.9.8.dev3}/tests/test_de_backends.py

@@ -86,6 +86,8 @@ def test_active_score_pb_x_layer_sentinel(adata_pb):
         reference_group="Control",
         use_pseudobulk=True,
         sample_col="sample",
+        pseudobulk_de_backend="scanpy",
+        de_method="wilcoxon",
         pb_use_total_for_x=False,
         pb_x_layer="X",
         use_permutation=False,

scatrans-0.9.8.dev2/src/scatrans/_bias.py

@@ -1,24 +0,0 @@
-"""
-Bias correction (Huber regression on gene length + intron number).
-
-The actual implementation lives in _utils._fit_huber_bias_correction so it can be
-used from both the main analysis path and from permutation tasks without duplication.
-
-Enhanced return: (residual, bias_info_dict) with fit diagnostics for transparency.
-"""
-
-from __future__ import annotations
-
-from typing import Any
-
-import numpy as np
-
-from ._utils import _fit_huber_bias_correction as _raw_fit
-
-
-def fit_huber_bias_correction(*args, **kwargs) -> tuple[np.ndarray, dict[str, Any]]:
-    """Public/internal wrapper that returns (residual, bias_info)."""
-    return _raw_fit(*args, **kwargs)
-
-
-__all__ = ["fit_huber_bias_correction"]