Changes for release 1.1 #744
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Add MedSAM trainer
…tensors across devices (#632)
* Refactor medsam trainer to simple sam trainer --------- Co-authored-by: Constantin Pape <[email protected]>
Add LoRA based PEFT finetuning
Add semantic sam trainer
Implement 3D SAM Wrapper based on MA-SAM --------- Co-authored-by: Constantin Pape <[email protected]>
Updates to SAM 3d training --------- Co-authored-by: Constantin Pape <[email protected]>
…er (#645) Add simple 3d wrapper and enable freezing the encoder in sam 3d wrapper, simplify lora support
Minor fix to trainable sam model functionality
Clean up interfaces related to 3d models and PEFT
…el` (#654) Some refactoring of training functionality
Add weighted dice loss to semantic trainer
Add min-size to training and fix other issues
Add training scripts for unet and unetr
Update docstrings
Plotting scripts for AIS ablation
Supp. - lineplot for livecell lora experiments
* Update resource efficient finetuning experiments
Implenet FaCT-based finetuning
* Minor update to sam 3d wrapper * Refactor peft kwargs for simplesam 3d wrapper
Add CLI for automatic instance segmentation
Add test for automatic segmentation cli --------- Co-authored-by: Constantin Pape <[email protected]>
* Fix clearing shape layer * Replace edge-attributes with border-attributes for points layer (#697) * Update weight loading --------- Co-authored-by: Anwai Archit <[email protected]>
Extend support for iterative prompt generators to 3d
Add selective peft methods (eg. attention ft, bias ft, layernorm ft)
expose kwargs to allows parameters like dropout, etc. for peft modules --------- Co-authored-by: Carolin <[email protected]>
Add warning filter to sam training --------- Co-authored-by: Constantin Pape <[email protected]>
Add dry run for loaders to check for valid instances
Add scripts for benchmarking SAM models on microscopy datasets
Expose is_seg_dataset argument in sam dataset
Add materials for workshop and minor fixes
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