Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / constantinpape/torch-em issues and pull requests
#147 - UNETR with SAM initialization is not working yet
Issue -
State: open - Opened by constantinpape about 1 year ago
#146 - Implement UNETR
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#145 - Update trainer.fit
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#144 - Refactor experiments
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#143 - Add doc strings to datasets to provide the correct dataset references
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#142 - Implement sponge em dataset
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#141 - Implement Sponge Dataset
Issue -
State: closed - Opened by constantinpape about 1 year ago
#140 - Implement DeePict Dataset
Issue -
State: open - Opened by constantinpape about 1 year ago
- 1 comment
#139 - Implement NucMM Dataset
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#138 - Dataset updates
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#137 - Implement get_dataset for more datasets
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#136 - Update check_loader to save plots
Pull Request -
State: closed - Opened by anwai98 about 1 year ago
#135 - Add deepbacs dataloader
Pull Request -
State: closed - Opened by constantinpape about 1 year ago
#134 - TissueNet Dataloader
Pull Request -
State: closed - Opened by anwai98 about 1 year ago
#133 - UNETR Implementation in torch-em
Pull Request -
State: closed - Opened by anwai98 about 1 year ago
- 2 comments
#132 - Update Teacher Initialization for MT Setup
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#131 - Try to fix conda build issues
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#130 - Implement tif support in data loaders
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#129 - Update Prediction Functions for PUNet Domain Adaptation Setups
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#128 - Add CLI for UNet training and prediction
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#127 - Make livecell label extraction more robust against duplicate per obje…
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#126 - Add FixMatch-based Probabilistic Domain Adaptation Setups
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#125 - Add Probabilistic Self-Training (MT) Approaches
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#124 - Check failing test
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
- 1 comment
#123 - Add 2D Probabilistic UNet Training Setup
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
- 1 comment
#122 - Update Evaluation with Distribution Alignment
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#121 - Add Argument - Target Domain
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#120 - Implement classification functionality
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#119 - Add 2D Probabilistic UNet
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
- 1 comment
#118 - Add all necessary tests for mean teacher trainer deserialization
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#117 - Load utils
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#116 - Update Mean-Teacher and FixMatch Self-Training Scheme(s)
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
- 2 comments
#115 - Update Prob-DA Source UNet Parameters
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#114 - New datasets and other changes
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#113 - Add support for torch2
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#112 - Implement MeanTeacher Trainer
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#111 - Add neurips cell seg dataset; update raw image collection dataset; up…
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#110 - Misc changes WIP
Pull Request -
State: closed - Opened by constantinpape over 1 year ago
#109 - Update Checksum for UroCell Dataloader
Pull Request -
State: closed - Opened by anwai98 over 1 year ago
#108 - add args to adjust tqdm output
Pull Request -
State: closed - Opened by JonasHell over 1 year ago
#107 - add dense accumulate as additional baseline
Pull Request -
State: closed - Opened by JonasHell over 1 year ago
#106 - Raise value error if dice is called with non-matching shapes
Pull Request -
State: closed - Opened by constantinpape almost 2 years ago
#105 - Update Label Type Argument for LiveCELL
Pull Request -
State: closed - Opened by anwai98 almost 2 years ago
#104 - Add Separate Label Path to the LiveCELL Loader
Pull Request -
State: closed - Opened by anwai98 almost 2 years ago
- 1 comment
#103 - Follow ups: SPOCO
Issue -
State: open - Opened by constantinpape almost 2 years ago
#102 - ResNet3d updates
Issue -
State: open - Opened by constantinpape almost 2 years ago
#101 - implement gradient masking with cropping - new PR
Pull Request -
State: closed - Opened by JonasHell almost 2 years ago
- 2 comments
#100 - Update livecell.py
Pull Request -
State: closed - Opened by constantinpape almost 2 years ago
#99 - Add resnet 3d implementation (based on torchvision)
Pull Request -
State: closed - Opened by constantinpape almost 2 years ago
#98 - Augmentations
Pull Request -
State: closed - Opened by JonasHell almost 2 years ago
#97 - provide reasonable default values for augmentations
Pull Request -
State: closed - Opened by JonasHell almost 2 years ago
#96 - Implement sampler for the image collection dataset
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#95 - Multiple class output
Issue -
State: open - Opened by Czaki about 2 years ago
- 7 comments
#94 - When loading data for train allow to read data that has channel on first position
Pull Request -
State: closed - Opened by Czaki about 2 years ago
- 2 comments
#93 - Use tifffile to read compressed tif files
Pull Request -
State: closed - Opened by Czaki about 2 years ago
- 2 comments
#92 - Add support for multichannel compresed tif files
Issue -
State: closed - Opened by Czaki about 2 years ago
- 5 comments
#91 - Sample code from Readme ends with error
Issue -
State: closed - Opened by Czaki about 2 years ago
- 1 comment
#90 - implement gradient masking with cropping
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
#89 - fix bioimageio import in shallow2deep
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
#88 - Make bioimageio import optional
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#87 - Update spoco losses
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
- 1 comment
#86 - Use ApplyMask in other masking loss wrappers
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#85 - Add save_root argument to trainer to enable saving files at different…
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#84 - Add distance transform to label transforms
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#83 - adapt _serialize_feature_config() to work with strings
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
#82 - adapt default mean teacher augs to work with modelzoo export
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
#81 - More shallow2deep exp
Pull Request -
State: open - Opened by constantinpape about 2 years ago
#80 - Add tests for augmentations
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
- 1 comment
#79 - Elastic 3d
Pull Request -
State: closed - Opened by Buglakova about 2 years ago
- 1 comment
#78 - fix kwargs, other strategies have no img_shape
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
- 1 comment
#77 - add worst_tiles sampling
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
- 4 comments
#76 - Implement halo enlargment for transforms
Issue -
State: open - Opened by constantinpape about 2 years ago
#75 - Extend s2d functionality
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#74 - Add axon myelin training
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#73 - fix typo/bug in validation logging
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
#72 - Implement resize augmentations
Issue -
State: open - Opened by constantinpape about 2 years ago
#71 - S2D experiments for training LM enhancers
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#70 - Add general functionality for resampling datasets
Issue -
State: closed - Opened by constantinpape about 2 years ago
- 1 comment
#69 - 2D-UNet training notebook doesn't work for Colab
Issue -
State: closed - Opened by qin-yu about 2 years ago
- 3 comments
#68 - add noise augmentations for mean teacher approach
Pull Request -
State: closed - Opened by JonasHell about 2 years ago
#67 - Extend shallow2deep experiments
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#66 - Rethink validation metrics, checkpointing, lr scheduling, implement metric smoothing
Issue -
State: open - Opened by constantinpape about 2 years ago
#65 - Enable overwriting the min-shape in modelzoo export
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#64 - Update s2d features, extend mito-enhancer training
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#63 - Implement advanced rf training for s2d
Pull Request -
State: closed - Opened by constantinpape about 2 years ago
#62 - Add functionality to mask to-bg-boundaries
Pull Request -
State: closed - Opened by JonasHell over 2 years ago
#61 - ensure correct behaviour of filters when set manually
Pull Request -
State: closed - Opened by JonasHell over 2 years ago
#60 - Add sampler that checks if there are a minimum number of instances in the volume
Pull Request -
State: closed - Opened by JonasHell over 2 years ago
#59 - fix typo in augmentations
Pull Request -
State: closed - Opened by JonasHell over 2 years ago
#58 - Add s2d notebooks
Pull Request -
State: open - Opened by constantinpape over 2 years ago
#57 - fix error connected to retain_grad()
Pull Request -
State: closed - Opened by JonasHell over 2 years ago
- 1 comment
#56 - Fix deserialization by applying RoiWrapper
Pull Request -
State: closed - Opened by JonasHell over 2 years ago
- 1 comment
#55 - Deserialize ROI Wrapper WIP
Pull Request -
State: closed - Opened by constantinpape over 2 years ago
- 1 comment
#54 - Add Serializer to DefaultTrainer
Pull Request -
State: closed - Opened by FynnBe over 2 years ago
#53 - refactor DefaultTrainer.from_checkpoint
Pull Request -
State: closed - Opened by FynnBe over 2 years ago
- 3 comments
#52 - Expand tests for trainer
Pull Request -
State: closed - Opened by constantinpape over 2 years ago
- 1 comment
#51 - refactor _train_epoch and _validate
Pull Request -
State: closed - Opened by FynnBe over 2 years ago
#50 - fix best_metric < worst_metric
Pull Request -
State: closed - Opened by FynnBe over 2 years ago
- 1 comment
#49 - Add training notebooks
Pull Request -
State: closed - Opened by constantinpape over 2 years ago
#48 - Allow logger to generate a (run) id
Pull Request -
State: closed - Opened by FynnBe over 2 years ago