theislab/multimil

Issues

• Unable to perform intermodal integration

  #74 opened 2 months ago by Dexterssssss
  0

• logic in prep_minibatch

  #72 opened 2 months ago by rpeys
  0

• Can't run .load_query_data() multiple times in a row

  #64 opened 2 years ago by alitinet
  1

• tutorial for the or snipet for case where we only have 1 modality

  #44 opened 3 years ago by M0hammadL
  1

• Bag-level predictions do not correspond to unique samples?

  #70 opened 5 months ago by patricks-lab
  1

• Unable to run train with query data

  #71 opened 4 months ago by AlanTeoYueYang
  0

• HLCA analysis

  #62 opened 6 months ago by alitinet
  0

• CV benchmarks

  #61 opened 6 months ago by alitinet
  4

• Classification/reconstruction trade-off

  #58 opened 6 months ago by alitinet
  0

• Choose which covs to add to the MIL head

  #57 opened 6 months ago by alitinet
  0

• Bug in query fine-tuning

  #56 opened 6 months ago by alitinet
  1

• Support MMD integration

  #54 opened 6 months ago by alitinet
  0

• Trimodal benchmarks

  #53 opened 6 months ago by alitinet
  4

• the predict function breaks when new adata passed at ineference time

  #46 opened 6 months ago by M0hammadL
  1

• Add composition-aware sampler

  #66 opened 2 years ago by alitinet
  1

• Add fine-tuning on the classification

  #63 opened 2 years ago by alitinet
  0

• Add option to pre-train VAE

  #60 opened 2 years ago by alitinet
  0

• Integration robustness

  #59 opened 2 years ago by alitinet
  0

• multitask MIL

  #48 opened 2 years ago by M0hammadL
  2

• add ordinal classification

  #49 opened 2 years ago by M0hammadL
  0

• add predict function

  #45 opened 3 years ago by M0hammadL
  6

• Adding cont covariate encoder as discussed

  #43 opened 3 years ago by M0hammadL
  2

• adding mlp attention mechanism

  #47 opened 3 years ago by M0hammadL
  1

• Tensor size problem with increasing the batch effect

  #42 opened 3 years ago by M0hammadL
  0

• Fix bug in Cycle Consistency loss calculation

  #29 opened 4 years ago by awakeenderman
  1

• Fix progress bar

  #30 opened 4 years ago by M0hammadL
  0

• Use hyper-parameter optimization frameworks

  #32 opened 4 years ago by awakeenderman
  1

• Re-run the preprocessing notebooks

  #33 opened 4 years ago by awakeenderman
  3

• Add new small params to the model constructor

  #21 opened 4 years ago by M0hammadL
  0

• Add more loss functions & ability to change the decoder output

  #24 opened 4 years ago by alitinet
  0

• Benchmark on 10x PBMC 10k dataset

  #26 opened 4 years ago by awakeenderman
  1

• Benchmark on sci-CAR dataset

  #27 opened 4 years ago by awakeenderman
  2

• Benchmark on SNARE-seq dataset

  #28 opened 4 years ago by awakeenderman
  1

• add history plos logging

  #11 opened 4 years ago by M0hammadL
  0

• Test robustness

  #15 opened 4 years ago by alitinet
  1

• Add Kl annealing to the model

  #19 opened 4 years ago by M0hammadL
  0

• Fix bug in zero training history

  #20 opened 4 years ago by M0hammadL
  0

• Compare architectures

  #38 opened 4 years ago by alitinet
  5

• Add PoE models

  #39 opened 4 years ago by alitinet
  4

• Seurat v4 PBMC CITE-seq dataset

  #14 opened 4 years ago by alitinet
  2

• Kotliarov CITE-seq dataset

  #16 opened 4 years ago by alitinet
  2

• Gayoso CITE-seq dataset

  #17 opened 4 years ago by alitinet
  2

• Leukemia dataset

  #18 opened 4 years ago by alitinet
  1

• Benchmark pairs

  #35 opened 4 years ago by alitinet
  1

• Query Covid data

  #36 opened 4 years ago by alitinet
  1

• Add paired encoders/decoders

  #34 opened 4 years ago by alitinet
  0

• scvi-tools spleen/lymph nodes CITE-seq dataset

  #12 opened 4 years ago by alitinet
  1

• query to reference mapping feature

  #22 opened 4 years ago by M0hammadL
  0

• add a metric.py

  #10 opened 4 years ago by M0hammadL
  5

• change file structure

  #31 opened 4 years ago by M0hammadL
  0