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readme update #117

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Sep 25, 2023
Merged

readme update #117

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readme update
louisblankemeier Sep 25, 2023
39a4ce8
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louisblankemeier Sep 25, 2023
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26 changes: 13 additions & 13 deletions README.md
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Expand Up @@ -66,19 +66,6 @@ bin/C2C spine -i <path/to/input/folder>
<img src="figures/spine_example.png" height="300">
</p>

## Slice-by-Slice 2D Analysis of Muscle and Adipose Tissue

### Usage
```bash
bin/C2C muscle_adipose_tissue -i <path/to/input/folder>
```
- DICOM files within the input_path folder and subfolders of input_path will be processed.

### Example Output Image
<p align="center">
<img src="figures/muscle_adipose_tissue_example.png" height="300">
</p>

## End-to-End Spine, Muscle, and Adipose Tissue Analysis at T12-L5

### Usage
Expand Down Expand Up @@ -182,6 +169,19 @@ bin/C2C all -i <path/to/input/folder>
```
- input_path should contain a DICOM series or subfolders that contain DICOM series.

## Slice-by-Slice 2D Analysis of Muscle and Adipose Tissue [Depricated]

### Usage
```bash
bin/C2C muscle_adipose_tissue -i <path/to/input/folder>
```
- DICOM files within the input_path folder and subfolders of input_path will be processed.

### Example Output Image
<p align="center">
<img src="figures/muscle_adipose_tissue_example.png" height="300">
</p>

## Contribute
<a name="contribute"></a>
If you would like to contribute to Comp2Comp, we recommend you clone the repository and install Comp2Comp with `pip` in editable mode.
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1 change: 0 additions & 1 deletion comp2comp/io/io_utils.py
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Expand Up @@ -4,7 +4,6 @@
import os



def find_dicom_files(input_path):
dicom_series = []
if not os.path.isdir(input_path):
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