SURE-tools 2.0.6__py3-none-any.whl → 2.0.8__py3-none-any.whl

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Files changed (8) hide show
  1. SURE/SURE.py +11 -1
  2. SURE/flow/plot_quiver.py +1 -1
  3. {sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/METADATA +1 -1
  4. {sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/RECORD +8 -8
  5. {sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/WHEEL +0 -0
  6. {sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/entry_points.txt +0 -0
  7. {sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/licenses/LICENSE +0 -0
  8. {sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/top_level.txt +0 -0
SURE/SURE.py CHANGED
@@ -814,7 +814,7 @@ class SURE(nn.Module):
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  return A
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  def _cell_move(self, xs, factor_idx, perturb):
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- zns = self.encoder_zn(xs)
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+ zns,_ = self.encoder_zn(xs)
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  if type(factor_idx) == str:
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  factor_idx = np.where(self.cell_factor_names==factor_idx)
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@@ -850,6 +850,16 @@ class SURE(nn.Module):
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  Z = np.concatenate(Z)
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  return Z
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+ def get_metacell_move(self, factor_idx, perturb):
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+ zs = self._get_codebook()
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+ ps = convert_to_tensor(perturb, device=self.get_device())
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+
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+ if type(factor_idx) == str:
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+ factor_idx = np.where(self.cell_factor_names==factor_idx)
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+
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+ ms = self.cell_factor_effect[factor_idx]([zs,ps])
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+ return tensor_to_numpy(ms)
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+
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  def preprocess(self, xs, threshold=0):
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  if self.loss_func == 'bernoulli':
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  ad = sc.AnnData(xs)
SURE/flow/plot_quiver.py CHANGED
@@ -32,7 +32,7 @@ def plot_quiver(z_points, delta_z, method='umap', figsize=(6,4), dpi=200):
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  sc.pp.neighbors(ad)
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  sc.tl.umap(ad)
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  z_2d = ad[:z_points.shape[0]].obsm['X_umap']
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- delta_z_2d = ad[z_points.shape[0]:] - z_2d
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+ delta_z_2d = ad[z_points.shape[0]:].obsm['X_umap'] - z_2d
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  dim_names = ['UMAP1', 'UMAP2']
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  # 绘制quiver图
{sure_tools-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/METADATA 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: 2.0.6
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+ Version: 2.0.8
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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-2.0.6.dist-info → sure_tools-2.0.8.dist-info}/RECORD RENAMED
@@ -1,4 +1,4 @@
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- SURE/SURE.py,sha256=SZHxzI1YXVsdOAIFNE56pH3m_b6-mMegZuUYLnf9t3Y,50606
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+ SURE/SURE.py,sha256=OCmN0Y6OMOPooj6thCzsIJ-Kvm-Jih6LuR6zDT3QUpQ,50988
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  SURE/SURE2.py,sha256=8wlnMwb1xuf9QUksNkWdWx5ZWq-xIy9NLx8RdUnE82o,48501
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  SURE/__init__.py,sha256=mxdLoWa2fPEM4-WkJetMfcecpzqJ8YsM4lOoKHSLTrU,207
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  SURE/assembly/__init__.py,sha256=jxZLURXKPzXe21LhrZ09LgZr33iqdjlQy4oSEj5gR2Q,172
@@ -9,15 +9,15 @@ SURE/atac/utils.py,sha256=m4NYwpy9O5T1pXTzgCOCcmlwrC6GTi-cQ5sm2wZu2O8,4354
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  SURE/codebook/__init__.py,sha256=2T5gjp8JIaBayrXAnOJYSebQHsWprOs87difpR1OPNw,243
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  SURE/codebook/codebook.py,sha256=ZlN6gRX9Gj2D2u3P5KeOsbZri0MoMAiJo9lNeL-MK-I,17117
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  SURE/flow/__init__.py,sha256=uiF9eyo6sz5qw7fRFiKipaXHboAakeIqVWo8yjkq0B0,36
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- SURE/flow/plot_quiver.py,sha256=XRH1POyn2H7qJ_gSqo39YmjOR_Dn8a_9M_s-dnHJLlo,1850
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+ SURE/flow/plot_quiver.py,sha256=spcPC0BDpvC-FBk9XIu6rcJI64bS-U-IVmmKLYHHXgs,1865
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  SURE/flow/quiver.py,sha256=_euFqSaRrDoZ_oOabOx20LOoUTJ__XPhLW-vzLNQfAo,1859
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  SURE/utils/__init__.py,sha256=Htqv4KqVKcRiaaTBsR-6yZ4LSlbhbzutjNKXGD9-uds,660
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  SURE/utils/custom_mlp.py,sha256=07TYX1HgxfEjb_3i5MpiZfNhOhx3dKntuwGkrpteWiM,7036
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  SURE/utils/queue.py,sha256=E_5PA5EWcBoGAZj8BkKQnkCK0p4C-4-xcTPqdIXaPXU,1892
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  SURE/utils/utils.py,sha256=IUHjDDtYaAYllCWsZyIzqQwaLul6fJRvHRH4vIYcR-c,8462
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- sure_tools-2.0.6.dist-info/licenses/LICENSE,sha256=TFHKwmrAViXQbSX5W-NDItkWFjm45HWOeUniDrqmnu0,1065
19
- sure_tools-2.0.6.dist-info/METADATA,sha256=JxYp73Z3lPkJpz4erR2ugrSGMz4cc98HSs8fhKMByPM,2650
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- sure_tools-2.0.6.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
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- sure_tools-2.0.6.dist-info/entry_points.txt,sha256=u12payZYgCBy5FCwRHP6AlSQhKCiWSEDwj68r1DVdn8,40
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- sure_tools-2.0.6.dist-info/top_level.txt,sha256=BtFTebdiJeqra4r6mm-uEtwVRFLZ_IjYsQ7OnalrOvY,5
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- sure_tools-2.0.6.dist-info/RECORD,,
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+ sure_tools-2.0.8.dist-info/licenses/LICENSE,sha256=TFHKwmrAViXQbSX5W-NDItkWFjm45HWOeUniDrqmnu0,1065
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+ sure_tools-2.0.8.dist-info/METADATA,sha256=JzJ-omjqN9oETdVltZ8un_Sa7yUvQaFsfkJui6iZlEM,2650
20
+ sure_tools-2.0.8.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
21
+ sure_tools-2.0.8.dist-info/entry_points.txt,sha256=u12payZYgCBy5FCwRHP6AlSQhKCiWSEDwj68r1DVdn8,40
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+ sure_tools-2.0.8.dist-info/top_level.txt,sha256=BtFTebdiJeqra4r6mm-uEtwVRFLZ_IjYsQ7OnalrOvY,5
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+ sure_tools-2.0.8.dist-info/RECORD,,