YosefLab/mrvi

Issues

• Reproducibility issue of MRVI

  #105 opened 4 months ago by Nusob888
  0

• Loading saved model fails

  #104 opened 5 months ago by VladimirShitov
  3

• Produce user-guide and tutorial

  #96 opened 7 months ago by PierreBoyeau
  2

• Rm statsmodels dep

  #101 opened 7 months ago by PierreBoyeau
  1

• Remove pd.Series accession warnings

  #102 opened 7 months ago by PierreBoyeau
  1

• Reformat and simplify DA pipeline

  #95 opened 8 months ago by PierreBoyeau
  0

• Rename DE module

  #94 opened 8 months ago by PierreBoyeau
  0

• Nextflow/snakemake pipeline for automated reporting

  #97 opened 8 months ago by PierreBoyeau
  0

• Potential bugs in DE component of `perform_multivariate_analysis`

  #69 opened 9 months ago by PierreBoyeau
  0

• Experiment with downsampling one sample in one cell type

  #14 opened 9 months ago by adamgayoso
  2

• scIB benchmarking

  #16 opened 9 months ago by adamgayoso
  1

• Out of distribution masking of samples

  #21 opened 9 months ago by adamgayoso
  0

• High dimensional analysis

  #23 opened 9 months ago by adamgayoso
  0

• nonlinear u -> z encoder

  #27 opened 9 months ago by PierreBoyeau
  0

• Autocorr module

  #36 opened 9 months ago by PierreBoyeau
  0

• scalability issues

  #39 opened 9 months ago by PierreBoyeau
  0

• `IndexError` raised when computing local reps

  #44 opened 9 months ago by PierreBoyeau
  0

• New baselines

  #47 opened 9 months ago by PierreBoyeau
  0

• Select samples based on # of DEGs

  #48 opened 9 months ago by PierreBoyeau
  0

• stop gradients option in attention block

  #59 opened 9 months ago by PierreBoyeau
  0

• Attention from z to x

  #58 opened 9 months ago by PierreBoyeau
  0

• Taking counterfactual samples through to gex to rank genes

  #20 opened 9 months ago by adamgayoso
  1

• Sample embedding

  #17 opened 9 months ago by adamgayoso
  0

• 1000 donor PBMC dataset

  #19 opened 9 months ago by adamgayoso
  1

• sciplex dataset

  #18 opened 9 months ago by adamgayoso
  0

• Release checklist for preprint tag

  #81 opened 9 months ago by martinkim0
  0

• Remove to_device

  #85 opened 10 months ago by canergen
  2

• Wrong documentation

  #62 opened a year ago by canergen
  0

• Loss formulation

  #64 opened a year ago by canergen
  0

• variance can get 0 again?

  #61 opened a year ago by canergen
  0

• `reduce_by` distance mat kwargs

  #35 opened 2 years ago by PierreBoyeau
  0

• Appropriate Similarity Metric/non-zero diagonal elements

  #22 opened 2 years ago by justjhong
  0

• Statistical testing of sample-sample matrix with covariates

  #15 opened 2 years ago by adamgayoso
  0

• Encoder needs to see all covariates

  #4 opened 2 years ago by adamgayoso
  0

• Use `DenseGeneral` instead of params

  #2 opened 2 years ago by adamgayoso
  0

• Z->X decoder should have separate z and nuisance inputs

  #3 opened 2 years ago by adamgayoso
  1

• Old code reproducibility

  #6 opened 2 years ago by PierreBoyeau
  0