greenelab/tybalt

Issues

• ERROR: VAE Model reconstruct the gene expression data

  #153 opened 3 years ago by Sithara85
  4

• Modify Tybalt to handle missing values for incomplete data

  #156 opened 4 years ago by yagmuronay
  4

• Error when setting up environment

  #154 opened 4 years ago by matcyr
  7

• Passing list-likes to .loc or [] with any missing label will raise KeyError in the future, you can use .reindex() as an alternative.

  #155 opened 4 years ago by yagmuronay
  2

• Matching pancancer expression to metadata

  #152 opened 5 years ago by GlastonburyC
  4

• t-SNT visualization

  #151 opened 5 years ago by RunenrCode
  2

• Features that represent biological signals

  #150 opened 5 years ago by ZohrehShams
  3

• Sampling distriubtions

  #149 opened 6 years ago by spadavec
  7

• Zero'd out training

  #148 opened 6 years ago by spadavec
  3

• Sampling space for specific genes

  #145 opened 6 years ago by spadavec
  4

• Something wrong in extracting weights?

  #144 opened 6 years ago by tjiagoM
  3

• Replace data in encoded_adage_features.tsv

  #141 opened 6 years ago by arielah
  1

• Add R packages to environment.yml

  #115 opened 7 years ago by gwaybio
  2

• Reorganize repository

  #125 opened 7 years ago by gwaybio
  0

• Simulation Experiments

  #104 opened 7 years ago by gwaybio
  2

• Reproducing separation

  #121 opened 7 years ago by zalky
  3

• ADAGE Implementation Issues

  #127 opened 7 years ago by gwaybio
  2

• Save recon_loss and KL_loss separately to visualize tradeoff

  #13 opened 7 years ago by gwaybio
  1

• Keras versioning error

  #106 opened 7 years ago by ajlee21
  3

• MAD: mean or median?

  #99 opened 7 years ago by enricoferrero
  2

• High Weigh Genes Outliers

  #96 opened 7 years ago by gwaybio
  1

• Top n - High Weight Selection Method

  #97 opened 7 years ago by gwaybio
  1

• Pathway Coverage Evaluation

  #90 opened 7 years ago by gwaybio
  3

• Latent Space Evaluations: Interpolation

  #92 opened 7 years ago by gwaybio
  1

• Latent Space Evaluations: Arithmetic

  #91 opened 7 years ago by gwaybio
  1

• Add reconstruction based analysis

  #89 opened 7 years ago by gwaybio
  1

• logging folder

  #24 opened 7 years ago by gwaybio
  1

• Extract High Weight Genes for All Features

  #69 opened 7 years ago by gwaybio
  1

• Assess per Cancer-Type reconstruction cost

  #87 opened 7 years ago by gwaybio
  1

• Refactoring Tybalt VAE Code

  #74 opened 7 years ago by gwaybio
  1

• Brainstorm: Improving Model

  #4 opened 7 years ago by gwaybio
  1

• Brainstorm: Capabilities

  #3 opened 7 years ago by gwaybio
  1

• ADAGE gene weights

  #85 opened 7 years ago by gwaybio
  1

• Separate Diagnostic Notebook

  #57 opened 7 years ago by gwaybio
  2

• Establish naming convention for latent features

  #86 opened 7 years ago by gwaybio
  0

• Compressing git LFS files

  #78 opened 7 years ago by gwaybio
  0

• Output Gene Weight Matrix

  #64 opened 7 years ago by gwaybio
  0

• Define conda environment to work in GPU cluster

  #9 opened 7 years ago by gwaybio
  0

• write scripts/vae_pancancer.py

  #17 opened 7 years ago by gwaybio
  0

• Parameter Sweep

  #15 opened 7 years ago by gwaybio
  0

• Switch to Git LFS

  #7 opened 7 years ago by gwaybio
  1

• Implement Warmup

  #12 opened 7 years ago by gwaybio
  1

• Bug in Training VAE

  #8 opened 7 years ago by gwaybio
  1