BiomedSciAI/fuse-med-ml: 0.3.0

Alert: major revision

FuseMedML new version introduces a few minor backward compatibility breaks. Including new installation instructions.

• Add vit isic by @smartdanny in https://github.com/BiomedSciAI/fuse-med-ml/pull/221
• remove protobuf from dependencies by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/225
• Added more descriptive error messages and hints for common usage mistakes by @YoelShoshan in https://github.com/BiomedSciAI/fuse-med-ml/pull/226
• support arbitrary (not sequential and even not ints) balanced class values by @mosheraboh in https://github.com/BiomedSciAI/fuse-med-ml/pull/227
• update DL readme according to JOSS reviewer comments by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/232
• Some changes from DTI task (Add doc' and some small features) by @SagiPolaczek in https://github.com/BiomedSciAI/fuse-med-ml/pull/233
• knight data download script by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/235
• raise an exception in case of str input/outputs by @smartdanny in https://github.com/BiomedSciAI/fuse-med-ml/pull/234
• Auc metric fix by @avihu111 in https://github.com/BiomedSciAI/fuse-med-ml/pull/237
• CICD fix by @mosheraboh in https://github.com/BiomedSciAI/fuse-med-ml/pull/239
• fix learning rate and added config options by @liamhazan in https://github.com/BiomedSciAI/fuse-med-ml/pull/238
• Ensemble of multi-modal survival models by @michalozeryflato in https://github.com/BiomedSciAI/fuse-med-ml/pull/231
• add downsample option to BatchSamplerDefault by @mosheraboh in https://github.com/BiomedSciAI/fuse-med-ml/pull/246
• Ehr transformer ICU example by @ellabarkan in https://github.com/BiomedSciAI/fuse-med-ml/pull/245
• Simple MNIST Example by @smartdanny in https://github.com/BiomedSciAI/fuse-med-ml/pull/240
• Ehr transformer example by @ellabarkan in https://github.com/BiomedSciAI/fuse-med-ml/pull/256
• a more configureable resnet3d implementation by @avihu111 in https://github.com/BiomedSciAI/fuse-med-ml/pull/257
• not strict mode in ProjectPatchesTokenizer by @avihu111 in https://github.com/BiomedSciAI/fuse-med-ml/pull/260
• allow non-int sample ids in DatasetDefault by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/259
• support not specifying number of channels in ModelMultiHead by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/244
• update JOSS paper citation and badge by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/263
• support shallow copy of pipelines by @michalozeryflato in https://github.com/BiomedSciAI/fuse-med-ml/pull/262
• fix bug with specific binary input format by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/264
• Ndict support hydra by @michalozeryflato in https://github.com/BiomedSciAI/fuse-med-ml/pull/265
• add props to dataset and pipelines + small fix to cacher by @michalozeryflato in https://github.com/BiomedSciAI/fuse-med-ml/pull/266
• optimized train time for a use case of small samples and large batch by @mosheraboh in https://github.com/BiomedSciAI/fuse-med-ml/pull/268
• add multi-label metric cladd and func by @egozi in https://github.com/BiomedSciAI/fuse-med-ml/pull/269
• torchvision version upper bound fix by @SagiPolaczek in https://github.com/BiomedSciAI/fuse-med-ml/pull/254
• Additional model - CrossAttentionTransformerEncoder by @SagiPolaczek in https://github.com/BiomedSciAI/fuse-med-ml/pull/251
• ddp_fix by @smartdanny in https://github.com/BiomedSciAI/fuse-med-ml/pull/270
• NDict optimization by @SagiPolaczek in https://github.com/BiomedSciAI/fuse-med-ml/pull/271
• remove examples. prefix by @alex-golts in https://github.com/BiomedSciAI/fuse-med-ml/pull/276
• make examples subpackage (fuse_examples) by @mosheraboh in https://github.com/BiomedSciAI/fuse-med-ml/pull/277
• Fixes for the Hello World notebook by @SagiPolaczek in https://github.com/BiomedSciAI/fuse-med-ml/pull/275
• Pl model save + export the entire dataset (all keys) to dataframe by @mosheraboh in https://github.com/BiomedSciAI/fuse-med-ml/pull/281

• @ellabarkan made their first contribution in https://github.com/BiomedSciAI/fuse-med-ml/pull/245

Full Changelog: https://github.com/BiomedSciAI/fuse-med-ml/compare/0.2.9...0.3.0