tfclass-predict 1.0.2__tar.gz → 1.1.0__tar.gz

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Files changed (20) hide show
  1. {tfclass_predict-1.0.2/src/tfclass_predict.egg-info → tfclass_predict-1.1.0}/PKG-INFO +4 -4
  2. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/README.md +2 -2
  3. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/pyproject.toml +2 -2
  4. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0/src/tfclass_predict.egg-info}/PKG-INFO +4 -4
  5. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict.egg-info/requires.txt +1 -1
  6. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/LICENSE +0 -0
  7. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/setup.cfg +0 -0
  8. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/__init__.py +0 -0
  9. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/cli_interface.py +0 -0
  10. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/constants.py +0 -0
  11. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/io_interface.py +0 -0
  12. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/prediction_manager.py +0 -0
  13. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/predictor.py +0 -0
  14. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict/sequence_processor.py +0 -0
  15. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict.egg-info/SOURCES.txt +0 -0
  16. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict.egg-info/dependency_links.txt +0 -0
  17. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict.egg-info/entry_points.txt +0 -0
  18. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict.egg-info/top_level.txt +0 -0
  19. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/tests/test_parsing.py +0 -0
  20. {tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/tests/test_predictionmanager.py +0 -0
{tfclass_predict-1.0.2/src/tfclass_predict.egg-info → tfclass_predict-1.1.0}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: tfclass_predict
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- Version: 1.0.2
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+ Version: 1.1.0
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  Summary: tfclass_predict allows to estimate transcription factor bindingsites in the TFClass hierarchy.
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  Author-email: Christian Ickes <christian.ickes@med.uni-goettingen.de>, Hazal Timucin <hazal.timucin@med.uni-goettingen.de>
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  Project-URL: Homepage, https://gitlab.gwdg.de/hti/tfclass_dnabert
@@ -16,7 +16,7 @@ Classifier: Operating System :: Unix
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  Requires-Python: >=3.8
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  Description-Content-Type: text/markdown
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  License-File: LICENSE
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- Requires-Dist: transformers<=4.57.6
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+ Requires-Dist: transformers<=4.37.2
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  Requires-Dist: tensorflow>=2.13.0
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  Requires-Dist: pysam
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  Requires-Dist: numpy
@@ -42,7 +42,7 @@ TFClassPredict predicts transcription factor binding sites (TFBSs) on the human
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  The package can be installed via pip:
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  ```
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- pip install tfclass-predict
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+ pip install tfclass_predict
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  ```
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  To use the package the human genome (v38) and the TFClassPredict (TFCP) model (v1-06) are needed.
@@ -87,7 +87,7 @@ genome_file = "hg38.fa"
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  tfclass_model = "model/TFCP_model" #see Installation
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  res_dir = "res"
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- pred_manager = PredictionManager(bed_file, res_dir, genome=genome_file, tfclass_model=tfclass_model)
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+ pred_manager = PredictionManager(bed_file, res_dir, genome=genome_file, tfcp_model=tfclass_model)
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  pred_manager.predict()
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  pred_manager.save_results()
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  ```
{tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/README.md RENAMED
@@ -15,7 +15,7 @@ TFClassPredict predicts transcription factor binding sites (TFBSs) on the human
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  The package can be installed via pip:
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  ```
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- pip install tfclass-predict
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+ pip install tfclass_predict
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  ```
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  To use the package the human genome (v38) and the TFClassPredict (TFCP) model (v1-06) are needed.
@@ -60,7 +60,7 @@ genome_file = "hg38.fa"
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  tfclass_model = "model/TFCP_model" #see Installation
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  res_dir = "res"
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- pred_manager = PredictionManager(bed_file, res_dir, genome=genome_file, tfclass_model=tfclass_model)
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+ pred_manager = PredictionManager(bed_file, res_dir, genome=genome_file, tfcp_model=tfclass_model)
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  pred_manager.predict()
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  pred_manager.save_results()
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  ```
{tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/pyproject.toml RENAMED
@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
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  [project]
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  name = "tfclass_predict"
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- version = "1.0.2"
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+ version = "1.1.0"
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  authors = [
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  { name="Christian Ickes", email="christian.ickes@med.uni-goettingen.de" },
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  { name="Hazal Timucin", email="hazal.timucin@med.uni-goettingen.de" },
@@ -25,7 +25,7 @@ classifiers = [
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  ]
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  dependencies = [
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- "transformers <= 4.57.6",
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+ "transformers <= 4.37.2",
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  "tensorflow >= 2.13.0",
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  "pysam",
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  "numpy",
{tfclass_predict-1.0.2 → tfclass_predict-1.1.0/src/tfclass_predict.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: tfclass_predict
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- Version: 1.0.2
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+ Version: 1.1.0
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  Summary: tfclass_predict allows to estimate transcription factor bindingsites in the TFClass hierarchy.
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  Author-email: Christian Ickes <christian.ickes@med.uni-goettingen.de>, Hazal Timucin <hazal.timucin@med.uni-goettingen.de>
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  Project-URL: Homepage, https://gitlab.gwdg.de/hti/tfclass_dnabert
@@ -16,7 +16,7 @@ Classifier: Operating System :: Unix
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  Requires-Python: >=3.8
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  Description-Content-Type: text/markdown
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  License-File: LICENSE
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- Requires-Dist: transformers<=4.57.6
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+ Requires-Dist: transformers<=4.37.2
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  Requires-Dist: tensorflow>=2.13.0
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  Requires-Dist: pysam
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  Requires-Dist: numpy
@@ -42,7 +42,7 @@ TFClassPredict predicts transcription factor binding sites (TFBSs) on the human
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  The package can be installed via pip:
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  ```
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- pip install tfclass-predict
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+ pip install tfclass_predict
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  ```
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  To use the package the human genome (v38) and the TFClassPredict (TFCP) model (v1-06) are needed.
@@ -87,7 +87,7 @@ genome_file = "hg38.fa"
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  tfclass_model = "model/TFCP_model" #see Installation
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  res_dir = "res"
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- pred_manager = PredictionManager(bed_file, res_dir, genome=genome_file, tfclass_model=tfclass_model)
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+ pred_manager = PredictionManager(bed_file, res_dir, genome=genome_file, tfcp_model=tfclass_model)
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  pred_manager.predict()
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  pred_manager.save_results()
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  ```
{tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/src/tfclass_predict.egg-info/requires.txt RENAMED
@@ -1,4 +1,4 @@
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- transformers<=4.57.6
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+ transformers<=4.37.2
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  tensorflow>=2.13.0
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  pysam
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  numpy
{tfclass_predict-1.0.2 → tfclass_predict-1.1.0}/LICENSE RENAMED
File without changes