Comp2Comp

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Hi. I am currently using C2C to segment muscle, and it works very well. However, I noticed that it no longer supports 2D DICOM images like previous versions. Additionally, the...

xdaa4367

Manual adjustment of segmentation output

10

Thank you very much for this repository. If there are some failed segmentation, is it possible to adjust it manually? as you can see in this example the psoas muscles...

Meddebma

Cannot slice image objects; consider using img.slicer[slice] to generate a sliced image (see documentation for caveats) or slicing image array data with img.dataobj[slice] or img.get_fdata()[slice]

2

Hi. I'm currently using the the muscle_adipose_tissue pipeline and it works perfectly. However, I run into some issues when trying to use the spine_muscle_adipose_tissue and liver_spleen_pancreas pipelines, they all give...

DrKrabs

Use series number to separate multiple series where the dicoms exist within the same folder.

louisblankemeier

dicom_to_nifti triggers an error if it detects that different slices have different orientations. Seems that using SimpleITK solves this.

louisblankemeier

get_dicom_or_nifti_paths_and_num naming

4

Hi, I just tried to run Comp2Comp and I experienced the following error: ``` from comp2comp.io.io_utils import get_dicom_nifti_paths_and_num ImportError: cannot import name 'get_dicom_nifti_paths_and_num' from 'comp2comp.io.io_utils' (/home/jakob/dev/Comp2Comp/comp2comp/io/io_utils.py) ``` I fixed it...

wasserth

Possible to work on google colab?

9

Hi, is it possible to run comp2comp on google colab? and do you consider to integrate nifti format for input and output images? Best, Aymen

Meddebma

Pack image outputs into Dicom files for Dicom input / output

louisblankemeier

Master pipeline

1

TODO: Implement a master pipeline that includes all currently implemented pipelines.

louisblankemeier

If the orientation differs from what is expected, the visualizations appear flipped or transposed. Added a ToCanonical module before visualization would solve this.

louisblankemeier