SURE-tools 4.9.2__tar.gz → 4.9.4__tar.gz

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Files changed (30) hide show
  1. {sure_tools-4.9.2 → sure_tools-4.9.4}/PKG-INFO +1 -1
  2. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_nsf.py +4 -4
  3. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE_tools.egg-info/PKG-INFO +1 -1
  4. {sure_tools-4.9.2 → sure_tools-4.9.4}/setup.py +1 -1
  5. {sure_tools-4.9.2 → sure_tools-4.9.4}/LICENSE +0 -0
  6. {sure_tools-4.9.2 → sure_tools-4.9.4}/README.md +0 -0
  7. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE.py +0 -0
  8. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SUREMO.py +0 -0
  9. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_nsf_bk.py +0 -0
  10. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_vae.py +0 -0
  11. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_vae2.py +0 -0
  12. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_vae_vanilla.py +0 -0
  13. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_vanilla.py +0 -0
  14. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/__init__.py +0 -0
  15. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/atac/__init__.py +0 -0
  16. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/atac/utils.py +0 -0
  17. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/dist/__init__.py +0 -0
  18. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/dist/negbinomial.py +0 -0
  19. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/graph/__init__.py +0 -0
  20. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/graph/graph_utils.py +0 -0
  21. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/utils/__init__.py +0 -0
  22. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/utils/custom_mlp.py +0 -0
  23. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/utils/label.py +0 -0
  24. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/utils/queue.py +0 -0
  25. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/utils/utils.py +0 -0
  26. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE_tools.egg-info/SOURCES.txt +0 -0
  27. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE_tools.egg-info/dependency_links.txt +0 -0
  28. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE_tools.egg-info/requires.txt +0 -0
  29. {sure_tools-4.9.2 → sure_tools-4.9.4}/SURE_tools.egg-info/top_level.txt +0 -0
  30. {sure_tools-4.9.2 → sure_tools-4.9.4}/setup.cfg +0 -0
{sure_tools-4.9.2 → sure_tools-4.9.4}/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: 4.9.2
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+ Version: 4.9.4
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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-4.9.2 → sure_tools-4.9.4}/SURE/SURE_nsf.py RENAMED
@@ -81,7 +81,7 @@ def mask_matrix(matrix, mask_ratio=0.3, mask_value=0):
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  return masked_matrix
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- class SUREVAE(nn.Module):
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+ class SURENF(nn.Module):
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  """SUccinct REpresentation of single-omics cells
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  Parameters
@@ -722,7 +722,7 @@ class SUREVAE(nn.Module):
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  for Z_batch, _ in dataloader:
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  Z_batch = Z_batch.to(self.get_device())
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- dzs = self.latent_decoder([Z_batch]).sample((10,)).mean(axis=0)
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+ dzs = self.latent_decoder(Z_batch).sample((10,)).mean(axis=0)
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  A.append(tensor_to_numpy(dzs))
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  pbar.update(1)
@@ -793,7 +793,7 @@ class SUREVAE(nn.Module):
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  zfs += self.covariate_effects[i](F_batch_i)#.repeat(1,self.latent_dim)
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  shift += covariate_size
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- zps = self.latent_decoder([z_basal]).sample((10,)).mean(axis=0)
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+ zps = self.latent_decoder(z_basal).sample((10,)).mean(axis=0)
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  log_mu = self.decoder_log_mu([zps,zfs])
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  if self.loss_func == 'bernoulli':
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  counts = dist.Bernoulli(logits=log_mu).to_event(1).mean
@@ -866,7 +866,7 @@ class SUREVAE(nn.Module):
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  zfs += self.covariate_effects[i](F_batch_i)#.repeat(1,self.latent_dim)
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  shift += covariate_size
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- zps = self.latent_decoder([z_basal]).sample((10,)).mean(axis=0)
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+ zps = self.latent_decoder(z_basal).sample((10,)).mean(axis=0)
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  log_mu = self.decoder_log_mu([zps,zfs])
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  A.append(tensor_to_numpy(log_mu))
{sure_tools-4.9.2 → sure_tools-4.9.4}/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: 4.9.2
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+ Version: 4.9.4
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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-4.9.2 → sure_tools-4.9.4}/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='4.9.2',
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+ version='4.9.4',
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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-4.9.2 → sure_tools-4.9.4}/LICENSE RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/README.md RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE.py RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SUREMO.py RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_vae.py RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/SURE_vae2.py RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/SURE/__init__.py RENAMED
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{sure_tools-4.9.2 → sure_tools-4.9.4}/setup.cfg RENAMED
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