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Release History

Version 0.2.4

  • Support the input of one or multiple genes trends to initialize cell time, see config.py, parameter self.IROOT
  • Re-formulate the structure of configuratioin file

Version 0.2.3

  • Change threshold for self.AGENES_R2

Version 0.2.2

  • Add benchmarking function to scVelo
  • Provide prediction script which uses down-sampled data to predict RNA velocity and cell time on entire dataset
  • Add notebooks for auxiliary functions

Version 0.2.1

  • Support input of both raw path and adata objects
  • Fix bugs on logging file

Version 0.2.0

  • Beta version of UniTVelo released
  • Provide option of using gene counts for model initialization
  • Provide reference script for choosing unified-time mode or independent mode
  • Provide sampling script when dataset is oversized and GPU memory is bottleneck
  • Re-organize configuration file
  • Number of velocity genes can be amplified (an adjustable hyper-parameter) during optimization which allows post-analysis on more genes

Version 0.1.6

  • Fix bug for early stopping scenarios

Version 0.1.5

  • Fix bug in saving files
  • Add adjustable parameters for penalty in configuration file

Version 0.1.4

  • Add penalty on loss function
  • Support informative gene selection in unified-time mode

Version 0.1.3

  • Support CPU mode for model fitting
  • Fix bugs in documentations

Version 0.1.2

  • Fix bugs in setup.py
  • Add tutorials and documentations

Version 0.1.0

  • Alpha version of UniTVelo released