ONTraC 1.1.3

Changelog

Changed:

• Make niche cluster visualization no longer dependent on NT score.

Full Changelog: 1.1.2...1.1.3

ONTraC 2.0rc7

Full Changelog: 2.0rc6...2.0rc7

ONTraC 1.1.2

Changelog

Added:

• Node size legend in niche cluster connectivities visualization

Changed:

• Make node color legend optional in niche cluster connectivities visualization

Full Changelog: 1.1.1...1.1.2

ONTraC 1.1.1

Changelog

Fixed:

• Wrong processing for sample name using int

Full Changelog: 1.1.0...1.1.1

ONTraC 1.1.0

This version is paired with our Zenodo dataset

Changelog

Changed:

• Make options and modules' name consistent
  • NN/niche network
  • GNN/graph neural network
  • NT/niche trajectory
  • Rename createDataSet to ONTraC_NN
  • Rename NicheTrajectory to ONTraC_NT
  • Rename ONTraC_GP to ONTraC_GT
• Refine the optparser structures
• Extract preprocessing modules

Full Changelog: 1.0.7...1.1

2.0rc6

Full Changelog: 2.0rc5...2.0rc6

ONTraC 1.0.7

Changelog

Added:

• Niche cluster connectivity visualization for each sample
• Node colorbar for cluster connectivity visualization
• scale factor controlling the size of spatial-based plots
• N_GCN_LAYERS controlling the number of GCN layers in the model

Changed:

• Make log file optional for ONTraC_analysis

Fixed:

• Issues caused ONTraC_GNN still need dataset input

Full Changelog: 1.0.6...1.0.7

ONTraC 1.0.6.post1

Changelog

Changed:

• log file is optional for ONTraC_analysis

Fixed:

• Issues caused ONTraC_GNN still need dataset input

Full Changelog: 1.0.6...1.0.6.post1

ONTraC 1.0.6

Changelog

Added:

• ONTraC_GNN for running GNN only
• GNN parameters group validation
• More functions descriptions under GNN part
• Transparent edges and colorbar for niche cluster connectivities visualization
• TSP method for Niche Trajectory construction

Changed:

• rename GP to ONTraC_GP

Fixed:

• Loading dataset error in NicheTrajectory
• Log printing error on Windows

Full Changelog: 1.0.5...1.0.6

ONTraC 2.0rc5

Changelog

Fixed:

• run harmony issue

Full Changelog: 2.0rc4...2.0rc5