BIMSBbioinfo/flexynesis

Issues

• feature importance metrics for unsupervised models

  #90 opened 2 months ago by borauyar
  0

• add evaluation metrics for cross-modality networks and autoencoders

  #89 opened 2 months ago by borauyar
  0

• Implement intermediate fusion for GNNs

  #88 opened 2 months ago by borauyar
  0

• error in flexynesis-cli

  #87 opened 2 months ago by nilchia
  3

• Point newcomers to a quick-start notebook

  #49 opened 3 months ago by jonasfreimuth
  1

• Handle NA values during HPO

  #84 opened 3 months ago by borauyar
  0

• Description of the input folder for the DataImportner

  #42 opened 3 months ago by frenkiboy
  2

• Prepare example notebook for direct pred gcnn model

  #23 opened 3 months ago by trsvchn
  1

• Early fusion doesn't work for GCNN

  #29 opened 3 months ago by trsvchn
  1

• TypeError in Model DirectPredCNN: TypeError: __init__() takes from 4 to 6 positional arguments but 7 were given

  #41 opened 3 months ago by kollo97
  2

• implement GNNs with early fusion

  #82 opened 3 months ago by borauyar
  0

• switch to less memory-hungry feature importance method for GNNs

  #77 opened 3 months ago by borauyar
  0

• flexynesis -h takes too long to load

  #79 opened 4 months ago by borauyar
  0

• make cross-validation optional

  #75 opened 5 months ago by borauyar
  0

• print sample clustering by default

  #76 opened 5 months ago by borauyar
  0

• Option to specify resources to be used

  #47 opened 7 months ago by jonasfreimuth
  1

• regulate HPO configs according to input

  #71 opened 7 months ago by borauyar
  0

• Move dataset objects outside of models

  #69 opened 7 months ago by borauyar
  0

• graph import fails if different omics data has differing gene name/id conventions

  #67 opened 7 months ago by borauyar
  0

• Check for mismatches between label categories in train/test

  #66 opened 7 months ago by borauyar
  0

• OpenBLAS warnings of OpenMP loops during data import

  #52 opened 7 months ago by jonasfreimuth
  2

• Feature Request: Prevent features/nodes with high degree but low laplacian score from being removed in GNN setup

  #63 opened 7 months ago by trsvchn
  0

• Better implementaiton for STRING dataset

  #18 opened 7 months ago by trsvchn
  0

• Enable GPU support

  #20 opened 7 months ago by trsvchn
  1

• Graph and data needs synching again

  #57 opened 8 months ago by borauyar
  1

• Accept target variables as a list of strings

  #50 opened 8 months ago by frenkiboy
  0

• How can I provide which features to use for prediction?

  #44 opened 8 months ago by frenkiboy
  1

• print feature selection stats

  #54 opened 8 months ago by borauyar
  1

• Make an informative error if the rownames of clin don't match the sample names

  #45 opened 8 months ago by frenkiboy
  0

• feature selection takes too long on certain datasets (doesn't stop)

  #48 opened 8 months ago by frenkiboy
  1

• A verbose explanation of the settings.yaml file and data formats

  #38 opened 8 months ago by frenkiboy
  1

• print predicted labels

  #53 opened 8 months ago by borauyar
  1

• Guix installed flexynesis attempts to access user installed packages

  #46 opened 8 months ago by jonasfreimuth
  5

• Enable support for .tsv files

  #43 opened 8 months ago by frenkiboy
  0

• ValueError in Model MultiTripletNetwork: "The first target variable",main_var," must be a categorical variable"

  #40 opened 8 months ago by kollo97
  1

• `models` is not installed

  #37 opened 8 months ago by rekado
  1

• Update benchmark GHA workflow

  #21 opened 9 months ago by trsvchn
  0

• Finalize feature importance for direct pred GCNN model

  #22 opened 9 months ago by trsvchn
  0

• Use node feature matrix instead of vector

  #16 opened 10 months ago by trsvchn
  0

• consider using `match`

  #5 opened a year ago by rekado
  1

• ValueError is given a format string, which fails when the value is not a string

  #6 opened a year ago by rekado
  2

• Error: CXXABI_1.3.9

  #4 opened a year ago by vicfabienne
  3

• Multiple DeprecationWarnings upon installation

  #3 opened a year ago by vicfabienne
  1