theislab/scarches

Issues

• scPoli training progressively slower with increasing cell number when using raw counts

  #250 opened 2 months ago by gargerd
  2

• [Usage Question] Handling Non-Matching Categorical Labels in scArches

  #251 opened 2 months ago by yojetsharma
  0

• TypeError: __init__() got an unexpected keyword argument 'n_epochs'

  #249 opened 3 months ago by gaoyifei1122
  2

• Help in understanding condition_key and cell_type_key

  #248 opened 3 months ago by yojetsharma
  0

• Issue in annotating cell types of unlabelled query data by scPoli

  #226 opened 9 months ago by xr-song
  1

• cannot setup.py install

  #210 opened a year ago by jianrong0520
  7

• RuntimeError: mat1 and mat2 must have the same dtype, but got Double and Float

  #246 opened 4 months ago by alikigr
  0

• RuntimeError: indices should be either on cpu or on the same device as the indexed tensor (cpu)

  #245 opened 4 months ago by jayshent
  0

• Can trVAE in scarches be applied to perturbation prediction?

  #239 opened 4 months ago by weizhiting
  2

• Reproduction issue in treeArches

  #244 opened 4 months ago by hansen7
  0

• arm64 osx platform not supported?

  #241 opened 6 months ago by erzakiev
  2

• PBMC data no longer available

  #231 opened 8 months ago by huananfshi
  7

• Specify the number of cores

  #237 opened 6 months ago by tvegawaichman
  0

• Label transfer without any batch removal in the reference

  #236 opened 6 months ago by tvegawaichman
  0

• scGEN network.batch_removal error

  #235 opened 6 months ago by dKlee99
  1

• AttributeError: module 'scanpy.neighbors' has no attribute 'compute_neighbors_umap'

  #234 opened 7 months ago by bitcometz
  0

• scPoli Model for Unsupervised Use

  #224 opened 10 months ago by ShreyParikh07
  1

• Runtime error using scPoli - Tensors must have same number of dimensions: got 1 and 2

  #227 opened 8 months ago by lsw0825
  2

• No module named 'jax.extend'

  #229 opened 8 months ago by dustin-mullaney
  1

• Issue with expimap model

  #228 opened 9 months ago by MoLuLuMo
  1

• Potential bugs for label transfer

  #198 opened a year ago by shuailinli
  1

• scPoli usage

  #220 opened 9 months ago by Nusob888
  4

• Choice of reference and query data sets

  #225 opened 10 months ago by hl-xue
  1

• Errors extracting embeddings

  #214 opened 10 months ago by itamarb-cgen
  1

• the difference between scPoli and scANVI

  #216 opened 10 months ago by YawnC
  1

• More detailed training logs

  #222 opened a year ago by Nusob888
  2

• environment reproducibility

  #219 opened a year ago by racng
  2

• fail to use the sca.models.SCVI

  #206 opened a year ago by melancholy12
  7

• Update of conda environment yaml

  #217 opened a year ago by wlason
  0

• Runtime error using scPoli - mat1 and mat2 must have the same dtype, but got Double and Float

  #215 opened a year ago by parkjosh-broadinstitute
  7

• ImportError: libcudnn.so.8: cannot open shared object file: No such file or directory

  #211 opened a year ago by jianrong0520
  2

• hlca_map_classify.ipynb missing early_stopping_kwarg

  #213 opened a year ago by c-westhoven
  0

• problems about scHPL training

  #212 opened a year ago by YawnC
  13

• multiVAE and organize_multiome_anndatas: module 'scarches.models' has no attribute

  #199 opened a year ago by Yansr3
  4

• scArches for PeakVI

  #209 opened a year ago by simozhou
  1

• Multiple categorical_covariate_keys not allowed

  #208 opened a year ago by Yuki-YqHuang
  1

• Fail to import scarches

  #202 opened a year ago by melancholy12
  2

• Fail to get latent representation of reference + query dataset

  #197 opened a year ago by Yuki-YqHuang
  1

• fail to using scpoli for dataset training

  #205 opened a year ago by melancholy12
  2

• Fail to establish scpoli model

  #203 opened a year ago by melancholy12
  2

• AssertionError: the erro occurs in preparing query feature naming (gene symbols) does not match the reference model feature naming (ensembl IDs )

  #200 opened a year ago by Niubile001
  0

• Perform scArches in R using Seurat

  #207 opened a year ago by ConDem94
  0

• Error: don't know how to restore data location of torch.storage.UntypedStorage while trying to load HLCA reference

  #204 opened a year ago by bapoorva
  1

• scPoli dtype error

  #196 opened a year ago by JesperGrud
  4

• Scpoli：RuntimeError: expected scalar type Float but found Double

  #195 opened a year ago by melancholy12
  1

• Install issue - no .yml in repo

  #194 opened a year ago by james-cranley
  2

• TypeError: __init__() got an unexpected keyword argument 'condition_keys'

  #193 opened a year ago by yuxiaokang-source
  4

• Can I ask you how to make reference dataset from multiple datasets from different tech?

  #186 opened 2 years ago by IronSpirit
  0

• Which model should I use for a cell typing task

  #185 opened 2 years ago by abearab
  2

• Documentation website failing to load

  #184 opened 2 years ago by virpatel524
  5