GaNDLF

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Adding connected component analysis as a post-processing step

5

Adds connected component analysis ## Proposed Changes ## Checklist - [x] I have read the [`CONTRIBUTING`](https://github.com/CBICA/GaNDLF/blob/master/CONTRIBUTING.md) guide - [x] My PR is based from the [current GaNDLF master ](https://garygregory.wordpress.com/2016/11/10/how-to-catch-up-my-git-fork-to-master/) -...

Geeks-Sid

Update test workflow with file path filtering

2

Fixes #ISSUE_NUMBER ## Proposed Changes - Add path-ignore filtering to the test workflow so that it doesn't run only on doc changes. Keeping it minimal because other files (e.g. MANIFEST.in)...

AlexanderGetka-cbica

**Is your feature request related to a problem? Please describe.** Currently, these forms are "text-only", and can leave out information. **Describe the solution you'd like** It would be great if...

sarthakpati

Sort imports following PEP-8 to improve readability

9

This improves the readability of imports and follows the PEP-8 [import](https://peps.python.org/pep-0008/#imports) guidelines ## Proposed Changes Sorted all imports in gandlf ## Checklist - [x] I have read the [`CONTRIBUTING`](https://github.com/CBICA/GaNDLF/blob/master/CONTRIBUTING.md) guide...

Geeks-Sid

Improved logging

11

**Is your feature request related to a problem? Please describe.** Currently, we have our own logging class, which is fine, but it doesn't provide the option to extended debugging or...

sarthakpati

ImageNet pretrained UNet (only works on 2D images) added

5

Fixes #441 ## Proposed Changes - `imagenet_unet` can now be used by adding the following in the config: ```yaml model: architecture: imagenet_unet encoder_name: resnet34 # change in accordance with https://github.com/qubvel/segmentation_models.pytorch/blob/master/segmentation_models_pytorch/encoders/__init__.py...

sarthakpati

Add 2D segmentation models from `segmentation_models.pytorch`

2

**Is your feature request related to a problem? Please describe.** Currently, we do not have any ImageNet-pretrained segmentation models **Describe the solution you'd like** For some applications, the ImageNet-pretrained models...

sarthakpati

GAN models added.

5

Fixes #ISSUE_NUMBER ## Proposed Changes - ## Checklist - [x] I have read the [`CONTRIBUTING`](https://github.com/CBICA/GaNDLF/blob/master/CONTRIBUTING.md) guide - [x] My PR is based from the [current GaNDLF master ](https://garygregory.wordpress.com/2016/11/10/how-to-catch-up-my-git-fork-to-master/) - [x]...

ibrahimethemhamamci

Updating metric calculation

3

**Is your feature request related to a problem? Please describe.** Computing metrics for classification/segmentation problems based on the entire cohort which is not mathematically linear in nature. **Describe the solution...

Geeks-Sid

added augmentation for hed

1

## Proposed Changes - Added H&E based augmentations for Histopathology images (can be used for other RGB images) - Solves #510 ## Checklist - [x] I have read the [`CONTRIBUTING`](https://github.com/CBICA/GaNDLF/blob/master/CONTRIBUTING.md)...

Geeks-Sid