ebecht/infinityFlow

Issues

• Error in quantile.default(data, q)

  #32 opened 7 months ago by Sandyna
  6

• Minimum Input cell number

  #31 opened 10 months ago by GalliES
  1

• weird result-imputated XGBoost value are not correlated with it's real value in corresponding sample at all!

  #30 opened a year ago by RayRay-23
  1

• error in annotation and Isotype argument

  #9 opened 2 years ago by yaozhan2022
  2

• "Plotting" step during infinity_flow() crashed and only produced raw but not background-subtracted outputs?

  #28 opened 2 years ago by denvercal1234GitHub
  1

• Validation Strategies for Predicted Results

  #27 opened 2 years ago by Wei-Che-Chang
  0

• Marker_XGBoost_bgc_intensity on UMAP plots

  #19 opened 2 years ago by Cicevk
  8

• Do we need to remove the "experimentally measured" PE column before clustering?

  #26 opened 2 years ago by denvercal1234GitHub
  0

• Is it appropriate to use markers with expression predicted by one model together with markers predicted by another model in the same clustering?

  #25 opened 2 years ago by denvercal1234GitHub
  0

• Able to separate the training from the imputation?

  #24 opened 2 years ago by denvercal1234GitHub
  0

• Advice to tune the hyperparameters in extra_args_regression_params in training SVM, NN and XGBoost models

  #23 opened 2 years ago by denvercal1234GitHub
  0

• How to adjust transformation if it was not transformed properly during infinity_flow()?

  #22 opened 2 years ago by denvercal1234GitHub
  2

• Running NN: Error #15: Initializing libomp.dylib, but found libomp.dylib already initialized.

  #21 opened 2 years ago by denvercal1234GitHub
  1

• How to obtain UMAP coordinates and cluster ID per cell?

  #14 opened 2 years ago by denvercal1234GitHub
  5

• Should we exclude FCS files (i.e., exploratory PE marker wells) that have too high PE signals in infinityFlow model?

  #11 opened 2 years ago by denvercal1234GitHub
  2

• Increase imputed events

  #7 opened 3 years ago by GarrettCollett
  1

• Do I need to transform the output FCS files before clustering downstream of infinity_flow()?

  #17 opened 2 years ago by denvercal1234GitHub
  7

• Error in using GPU Tensorflow Mac M1 when doing neural network model

  #13 opened 2 years ago by denvercal1234GitHub
  4

• Warning: Some data values of 'CD49E.LASSO2' channel exceed its $PnR value 175864747 and will be truncated! To avoid truncation, either fix $PnR before generating FCS or set 'truncate_max_range = FALSE'

  #20 opened 2 years ago by denvercal1234GitHub
  11

• How to check the accuracy of logicle transformation before proceeding with infinity_flow?

  #18 opened 2 years ago by denvercal1234GitHub
  3

• How to specify autofluorescence channel in place of isotype control in annotation.txt, backbone_specification, and infinity_flow()?

  #12 opened 2 years ago by denvercal1234GitHub
  3

• Error in logicle_transform

  #15 opened 2 years ago by Cicevk
  2

• Error in xp[, x] : subscript out of bounds at logicle-transforming the data - Backbone

  #16 opened 2 years ago by denvercal1234GitHub
  1

• Data transformation

  #6 opened 3 years ago by GeorgeAlehandro
  3

• Question about backbone selection and error in dimnames(x)

  #8 opened 3 years ago by GRT-coder
  1

• Cannot allocate of vector of size ...

  #5 opened 3 years ago by ebecht
  3

• infinity_flow error

  #10 opened 2 years ago by SmithMaxine
  3

• Background correction error

  #3 opened 4 years ago by sschepanski
  4

• Questions/improvements

  #4 opened 3 years ago by jacobpwagner
  3

• Applicability to other data types?

  #1 opened 4 years ago by 83years
  4

• Running multiple imputations with same temp folder appends files

  #2 opened 4 years ago by NKInstinct
  3