0.1.0 beta

Summary of some main changes

• New features
  • Archive data version, allowing full reproducibility
  • Non-redundant label set collection filtering
  • Save data processing config file
  • Filter gene annotation data sources
• Several refactoring
  • GenePropertyConverter
  • Dataset
  • Feature
• Improved graph API
  • remove_edge
  • add_nodes
  • add_node
  • get_neighbors

What's Changed

• Fix data by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/155
• Clone NDEx networks and timout DisGeNet test by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/158
• Induced subgraph by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/162
• Data nosave by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/164
• Connected component by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/165
• Fast sparse subgraph by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/167
• CX network data preprocessing with connected comp by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/169
• Fix pbar by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/173
• Log dataset downloading/processing by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/174
• Cache transformed data by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/177
• Add PCNet v1.3 network by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/179
• NDEx CX stream data explorer by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/180
• Only preserve human genes in network data by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/182
• Remove genes with ambiguous Entrez mapping by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/183
• Cache mygene conversion by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/184
• Schedule example execution test instead of PR/push by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/185
• Test converter by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/187
• Sort imports via isort, line-length 80 -> 88 by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/190
• Fix yaml format by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/191
• Fix absolute imports by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/205
• Implement non-redundant labelset filters by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/216
• Implement experimental dataset object AlevinFry by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/220
• Implement archival data download option by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/222
• update: get_nonred_label_ids use sort tuples by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/229
• Check data transform configuration by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/230
• Refactor pre-transform by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/231
• Improve transformed data caching and logging by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/232
• Data object config file by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/233
• Set up bump2version by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/236
• Implement config checker by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/237
• set up node id converter using preset name by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/238
• update data config format; fix network stats by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/239
• Release data nledata-v0.1.0-dev and test data on latest release by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/243
• update: test examples by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/244
• update: graph api add_node(s) methods by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/245
• feat: get_neighbors graph api method by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/246
• feat: remove_edge methods for sparse graph objects by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/247
• refactor config by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/248
• refactor: exceptions by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/249
• refactor: feature by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/250
• fix: patch graphgym by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/251
• Refactor Dataset out from model_trainer by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/253
• merge y and masks into Dataset by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/255
• use archived data in examples by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/260
• feat: GenePropertyConverter by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/261
• refactor: split and property_converter by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/265
• update: download versioned data cache if not it is not avaialbe yet by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/269
• update: DisGeNet curated annotation source by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/272
• update: GO curated annotation source by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/273
• update readme with updated api by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/275
• Update data release by @RemyLau in https://github.com/krishnanlab/NetworkLearningEval/pull/277

Full Changelog: krishnanlab/NetworkLearningEval@v0.0.3...v0.1.0-dev1