SURE-tools 2.1.17__tar.gz → 2.1.19__tar.gz

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  1. {sure_tools-2.1.17 → sure_tools-2.1.19}/PKG-INFO +1 -1
  2. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/PerturbFlow.py +4 -4
  3. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/SURE.py +1 -0
  4. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/PKG-INFO +1 -1
  5. {sure_tools-2.1.17 → sure_tools-2.1.19}/setup.py +1 -1
  6. {sure_tools-2.1.17 → sure_tools-2.1.19}/LICENSE +0 -0
  7. {sure_tools-2.1.17 → sure_tools-2.1.19}/README.md +0 -0
  8. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/__init__.py +0 -0
  9. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/assembly/__init__.py +0 -0
  10. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/assembly/assembly.py +0 -0
  11. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/assembly/atlas.py +0 -0
  12. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/atac/__init__.py +0 -0
  13. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/atac/utils.py +0 -0
  14. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/codebook/__init__.py +0 -0
  15. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/codebook/codebook.py +0 -0
  16. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/flow/__init__.py +0 -0
  17. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/flow/flow_stats.py +0 -0
  18. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/flow/plot_quiver.py +0 -0
  19. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/perturb/__init__.py +0 -0
  20. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/perturb/perturb.py +0 -0
  21. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/utils/__init__.py +0 -0
  22. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/utils/custom_mlp.py +0 -0
  23. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/utils/queue.py +0 -0
  24. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/utils/utils.py +0 -0
  25. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/SOURCES.txt +0 -0
  26. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/dependency_links.txt +0 -0
  27. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/entry_points.txt +0 -0
  28. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/requires.txt +0 -0
  29. {sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/top_level.txt +0 -0
  30. {sure_tools-2.1.17 → sure_tools-2.1.19}/setup.cfg +0 -0
{sure_tools-2.1.17 → sure_tools-2.1.19}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: SURE-tools
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- Version: 2.1.17
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+ Version: 2.1.19
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  Summary: Succinct Representation of Single Cells
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  Home-page: https://github.com/ZengFLab/SURE
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  Author: Feng Zeng
{sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/PerturbFlow.py RENAMED
@@ -663,15 +663,15 @@ class PerturbFlow(nn.Module):
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  cb = tensor_to_numpy(cb)
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  return cb
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- def _get_basis_embedding(self, xs):
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+ def _get_basal_embedding(self, xs):
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  zns, _ = self.encoder_zn(xs)
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  return zns
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- def get_basis_embedding(self,
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+ def get_basal_embedding(self,
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  xs,
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  batch_size: int = 1024):
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  """
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- Return cells' basis latent representations
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+ Return cells' basal latent representations
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  Parameters
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  ----------
@@ -692,7 +692,7 @@ class PerturbFlow(nn.Module):
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  Z = []
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  with tqdm(total=len(dataloader), desc='', unit='batch') as pbar:
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  for X_batch, _ in dataloader:
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- zns = self._get_basis_embedding(X_batch)
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+ zns = self._get_basal_embedding(X_batch)
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  Z.append(tensor_to_numpy(zns))
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  pbar.update(1)
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{sure_tools-2.1.17 → sure_tools-2.1.19}/SURE/SURE.py RENAMED
@@ -240,6 +240,7 @@ class SURE(nn.Module):
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  post_act_fct=post_act_fct,
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  allow_broadcast=self.allow_broadcast,
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  use_cuda=self.use_cuda,
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+ bias=False,
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  )
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  self.decoder_concentrate = MLP(
{sure_tools-2.1.17 → sure_tools-2.1.19}/SURE_tools.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: SURE-tools
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- Version: 2.1.17
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+ Version: 2.1.19
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  Summary: Succinct Representation of Single Cells
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  Home-page: https://github.com/ZengFLab/SURE
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  Author: Feng Zeng
{sure_tools-2.1.17 → sure_tools-2.1.19}/setup.py RENAMED
@@ -5,7 +5,7 @@ with open("README.md", "r") as fh:
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  setup(
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  name='SURE-tools',
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- version='2.1.17',
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+ version='2.1.19',
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  description='Succinct Representation of Single Cells',
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  long_description=long_description,
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  long_description_content_type="text/markdown",
{sure_tools-2.1.17 → sure_tools-2.1.19}/LICENSE RENAMED
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{sure_tools-2.1.17 → sure_tools-2.1.19}/README.md RENAMED
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{sure_tools-2.1.17 → sure_tools-2.1.19}/setup.cfg RENAMED
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