diff --git a/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/20190201_095221.gif b/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/20190201_095221.gif deleted file mode 100644 index d32a0e3ca..000000000 Binary files a/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/20190201_095221.gif and /dev/null differ diff --git a/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/README.md b/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/README.md index f5889b690..0a8d68ac1 100644 --- a/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/README.md +++ b/PW30_2019_GranCanaria/Projects/Data-glove_for_virtual_operations/README.md @@ -46,7 +46,7 @@ We built a data-glove that tracks hand movements. Our goal is to connect it to S Result: -![Result](20190201_095221.gif) +![Result](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW30__Data-glove_for_virtual_operations__20190201_095221.gif) # Background and References diff --git a/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/README.md b/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/README.md index 4c41dcd54..c6b784f25 100644 --- a/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/README.md +++ b/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/README.md @@ -51,7 +51,7 @@ The goal is to combine the registration method for _open_ surgery implemented in **Generate aligned CT-US data:** -![US-CT Data](US-CTAlignment.gif) +![US-CT Data](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW35__US_CT_VertebraRegistration__US-CTAlignment.gif) @@ -67,4 +67,4 @@ The goal is to combine the registration method for _open_ surgery implemented in # Background and References - \ No newline at end of file + diff --git a/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/US-CTAlignment.gif b/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/US-CTAlignment.gif deleted file mode 100644 index 568436b04..000000000 Binary files a/PW35_2021_Virtual/Projects/US_CT_VertebraRegistration/US-CTAlignment.gif and /dev/null differ diff --git a/PW36_2022_Virtual/Projects/TMRCatheterNavigation/README.md b/PW36_2022_Virtual/Projects/TMRCatheterNavigation/README.md index 751406af6..0a164d259 100644 --- a/PW36_2022_Virtual/Projects/TMRCatheterNavigation/README.md +++ b/PW36_2022_Virtual/Projects/TMRCatheterNavigation/README.md @@ -48,7 +48,7 @@ A vessel model will be reconstructed from a preoperative 3D CT. During the opera ![Experimental setup](img1.png) ![Experimental setup](img2.png) -![Experimental setup](video.gif) +![Experimental setup](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW36__TMRCatheterNavigation__video.gif) # Background and References diff --git a/PW36_2022_Virtual/Projects/TMRCatheterNavigation/video.gif b/PW36_2022_Virtual/Projects/TMRCatheterNavigation/video.gif deleted file mode 100644 index 6a7a072b4..000000000 Binary files a/PW36_2022_Virtual/Projects/TMRCatheterNavigation/video.gif and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/SlicerLiver/README.md b/PW37_2022_Virtual/Projects/SlicerLiver/README.md index 9f67ac867..d2d72a738 100644 --- a/PW37_2022_Virtual/Projects/SlicerLiver/README.md +++ b/PW37_2022_Virtual/Projects/SlicerLiver/README.md @@ -54,6 +54,30 @@ PW36](https://github.com/NA-MIC/ProjectWeek/tree/master/PW36_2022_Virtual/Projec + + + + + + + + ## Progress and Next Steps In this project week, we have changed the user interaction to use segmentations instead of models, which greatly simplifies the user interaction. @@ -63,9 +87,8 @@ There is a PR for adding this extension to the extension manager. This be effect There are still standard features (e.g., volumetry computation) and new research features (e.g, risk maps visualization, new planning algorithms) that we would like to implement in future Project Weeks. # Background and References -1. [Slicer-Liver PW36](https://github.com/NA-MIC/ProjectWeek/tree/master/PW36_2022_Virtual/Projects/Slicer-Liver -1. [Slicer-Liver PW35](https://github.com/NA-MIC/ProjectWeek/tree/master/PW35_2021_Virtual/Projects/Slicer-Liver - "Slicer-Liver in the last ProjectWeek") (June 2021) +1. [Slicer-Liver PW36](https://github.com/NA-MIC/ProjectWeek/tree/master/PW36_2022_Virtual/Projects/Slicer-Liver) (January 2022) +1. [Slicer-Liver PW35](https://github.com/NA-MIC/ProjectWeek/tree/master/PW35_2021_Virtual/Projects/Slicer-Liver) (June 2021) 1. [NorMIT-Plan at NA-MIC project week](https://projectweek.na-mic.org/PW33_2020_GranCanaria/Projects/NorMIT-Plan/) (january 2020) 1. [NorMIT-Plan at NA-MIC project week](https://projectweek.na-mic.org/PW34_2020_Virtual/Projects/SlicerLiverAnalysis/) (December 2020) 1. Palomar, Rafael, et al. "A novel method for planning liver resections using deformable Bézier surfaces and distance maps." Computer Methods and Programs in Biomedicine 144 (2017): 135-45. diff --git a/PW37_2022_Virtual/Projects/SlicerLiver/distance-tumor.webm b/PW37_2022_Virtual/Projects/SlicerLiver/distance-tumor.webm deleted file mode 100644 index d6707e428..000000000 Binary files a/PW37_2022_Virtual/Projects/SlicerLiver/distance-tumor.webm and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/SlicerLiver/distance-vessels.webm b/PW37_2022_Virtual/Projects/SlicerLiver/distance-vessels.webm deleted file mode 100644 index b76975f67..000000000 Binary files a/PW37_2022_Virtual/Projects/SlicerLiver/distance-vessels.webm and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/SlicerLiver/liver_resection.mp4 b/PW37_2022_Virtual/Projects/SlicerLiver/liver_resection.mp4 deleted file mode 100644 index 5270bd56c..000000000 Binary files a/PW37_2022_Virtual/Projects/SlicerLiver/liver_resection.mp4 and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/SlicerLiver/planning.webm b/PW37_2022_Virtual/Projects/SlicerLiver/planning.webm deleted file mode 100644 index 40ad004c7..000000000 Binary files a/PW37_2022_Virtual/Projects/SlicerLiver/planning.webm and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/SlicerTMS/README.md b/PW37_2022_Virtual/Projects/SlicerTMS/README.md index 7c8a6a542..a43a5240b 100644 --- a/PW37_2022_Virtual/Projects/SlicerTMS/README.md +++ b/PW37_2022_Virtual/Projects/SlicerTMS/README.md @@ -44,7 +44,7 @@ Real-time visualization of an electric field (E-field) for transcranial magnetic #### Coil moving and updating the electric field on the brain surface inside slicer: -Brain surface coil moving +Brain surface coil moving #### Started WebSocket Tests: we can interact with the red, green and yellow slices with the new websocket connection: diff --git a/PW37_2022_Virtual/Projects/SlicerTMS/tms_vis.gif b/PW37_2022_Virtual/Projects/SlicerTMS/tms_vis.gif deleted file mode 100644 index db1eb6ecc..000000000 Binary files a/PW37_2022_Virtual/Projects/SlicerTMS/tms_vis.gif and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/FinalROITool_1.gif b/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/FinalROITool_1.gif deleted file mode 100644 index 5448af856..000000000 Binary files a/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/FinalROITool_1.gif and /dev/null differ diff --git a/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/README.md b/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/README.md index 9a9e1423b..f2633ca87 100644 --- a/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/README.md +++ b/PW37_2022_Virtual/Projects/StreamlinedROIAnnotationTool/README.md @@ -55,6 +55,7 @@ as possible. and image information back to server. ## Next Steps + 1. Need to add scoring functionality (DONE) 2. Need to add way to mark image as defective (DONE) 3. Need to add way to clear Previously added ROIs (DONE w/help from erikz) @@ -65,6 +66,7 @@ as possible. # Illustrations +

@@ -72,8 +74,10 @@ as possible. Demo video from start of project: ![](SimplifiedROITool.gif) ![](roi-web-tool-example.gif) + Demo video from end of project: -![](FinalROITool_1.gif) +![](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW37__StreamlinedROIAnnotationTool__FinalROITool_1.gif) + # Background and References diff --git a/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/NA-MIC.gif b/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/NA-MIC.gif deleted file mode 100644 index 7d280ecf4..000000000 Binary files a/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/NA-MIC.gif and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/README.md b/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/README.md index 2a8dfd6dc..b894a34de 100644 --- a/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/README.md +++ b/PW38_2023_GranCanaria/Projects/KaapanaFastViewingAndTaggingOfDICOMImages/README.md @@ -18,7 +18,7 @@ https://drive.google.com/file/d/1A7-8Ru0uTJHFFa17rZtkBpvNhJao_F7x/view?usp=share Creating a cohort or tagging DICOM images is a very time-consuming and error-prone procedure. In this project, we are extending the functionality of the so-called Gallery View within Kaapana. -![](NA-MIC.gif) +![](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW38__KaapanaFastViewingAndTaggingOfDICOMImages__NA-MIC.gif) ## Approach and Plan @@ -55,4 +55,4 @@ tbd # Background and References -https://github.com/kaapana/kaapana \ No newline at end of file +https://github.com/kaapana/kaapana diff --git a/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/README.md b/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/README.md index ff402eac6..806342843 100644 --- a/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/README.md +++ b/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/README.md @@ -67,12 +67,14 @@ Figure 1 - Full CT segmentation on subject from spleen decathalon data Figure 2 - Comparison on spleen decathalon data of the MONAI full CT segmentation bundle we created (left) to the output TotalSegmentator produces (right) [monai_bundle_vs_total_seg_spleen.webm](https://user-images.githubusercontent.com/59979551/216606510-047a0105-17ca-4765-8186-4132edf2c0e9.webm) +![](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW38__MONAILabel2bundle__monai_bundle_vs_total_seg_spleen.gif) Figure 3 - Full CT segmentation on subject from IDC ![02_03_23_full_ct_segmentation_success_idc](https://user-images.githubusercontent.com/59979551/216612414-649813e5-945b-4719-aaa8-8954aeb44d18.JPG) Figure 4 - Comparison on IDC data of the MONAI full CT segmentation bundle we created (left) to the output TotalSegmentator produces (right) [monai_bundle_vs_total_seg_idc.webm](https://user-images.githubusercontent.com/59979551/216612449-013d7dad-7bc6-43b0-9780-0c9f9b848007.webm) +![](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW38__MONAILabel2bundle__monai_bundle_vs_total_seg_idc.gif) ## Discussion notes diff --git a/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/monai_bundle_vs_total_seg_idc.gif b/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/monai_bundle_vs_total_seg_idc.gif deleted file mode 100644 index e27898ef7..000000000 Binary files a/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/monai_bundle_vs_total_seg_idc.gif and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/monai_bundle_vs_total_seg_spleen.gif b/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/monai_bundle_vs_total_seg_spleen.gif deleted file mode 100644 index 8c5fb9bd4..000000000 Binary files a/PW38_2023_GranCanaria/Projects/MONAILabel2bundle/monai_bundle_vs_total_seg_spleen.gif and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/README.md b/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/README.md index f7a657acb..b82d7625f 100644 --- a/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/README.md +++ b/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/README.md @@ -45,8 +45,8 @@ The set of cameras to integrate includes (but not limited to): visible light USB ![Some more images](Example2.jpg) --> Fig. 1: Integration of Thermal Expert EV2 & PCO Ultraviolet Cameras (OpenIGTLink) -[TEEV2PCOUV-2.gif](https://github.com/NA-MIC/ProjectWeek/blob/master/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/TEEV2PCOUV-2.gif) -
+[TEEV2PCOUV-2.gif](https://github.com/NA-MIC/ProjectWeek/releases/download/project-week-resources/PW38__MultiSpectralSensorIntegration__TEEV2PCOUV-2.gif) +
# Background and References diff --git a/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/TEEV2PCOUV-2.gif b/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/TEEV2PCOUV-2.gif deleted file mode 100644 index 476f916b2..000000000 Binary files a/PW38_2023_GranCanaria/Projects/MultiSpectralSensorIntegration/TEEV2PCOUV-2.gif and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/SlicerLiver/README.md b/PW38_2023_GranCanaria/Projects/SlicerLiver/README.md index 13e791988..0e97b35dc 100644 --- a/PW38_2023_GranCanaria/Projects/SlicerLiver/README.md +++ b/PW38_2023_GranCanaria/Projects/SlicerLiver/README.md @@ -80,10 +80,9 @@ There are still standard features (e.g., volumetry computation) and new research # Background and References -1. [Slicer-Liver PW37](https://github.com/NA-MIC/ProjectWeek/tree/master/PW37_2022_Virtual/Projects/Slicer-Liver -1. [Slicer-Liver PW36](https://github.com/NA-MIC/ProjectWeek/tree/master/PW36_2022_Virtual/Projects/Slicer-Liver -1. [Slicer-Liver PW35](https://github.com/NA-MIC/ProjectWeek/tree/master/PW35_2021_Virtual/Projects/Slicer-Liver - "Slicer-Liver in the last ProjectWeek") (June 2021) +1. [Slicer-Liver PW37](https://github.com/NA-MIC/ProjectWeek/tree/master/PW37_2022_Virtual/Projects/Slicer-Liver) (July 2022) +1. [Slicer-Liver PW36](https://github.com/NA-MIC/ProjectWeek/tree/master/PW36_2022_Virtual/Projects/Slicer-Liver) (January 2022) +1. [Slicer-Liver PW35](https://github.com/NA-MIC/ProjectWeek/tree/master/PW35_2021_Virtual/Projects/Slicer-Liver) (June 2021) 1. [NorMIT-Plan at NA-MIC project week](https://projectweek.na-mic.org/PW33_2020_GranCanaria/Projects/NorMIT-Plan/) (january 2020) 1. [NorMIT-Plan at NA-MIC project week](https://projectweek.na-mic.org/PW34_2020_Virtual/Projects/SlicerLiverAnalysis/) (December 2020) 1. Palomar, Rafael, et al. "A novel method for planning liver resections using deformable Bézier surfaces and distance maps." Computer Methods and Programs in Biomedicine 144 (2017): 135-45. diff --git a/PW38_2023_GranCanaria/Projects/SlicerLiver/distance-tumor.webm b/PW38_2023_GranCanaria/Projects/SlicerLiver/distance-tumor.webm deleted file mode 100644 index d6707e428..000000000 Binary files a/PW38_2023_GranCanaria/Projects/SlicerLiver/distance-tumor.webm and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/SlicerLiver/distance-vessels.webm b/PW38_2023_GranCanaria/Projects/SlicerLiver/distance-vessels.webm deleted file mode 100644 index b76975f67..000000000 Binary files a/PW38_2023_GranCanaria/Projects/SlicerLiver/distance-vessels.webm and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/SlicerLiver/liver_resection.mp4 b/PW38_2023_GranCanaria/Projects/SlicerLiver/liver_resection.mp4 deleted file mode 100644 index 5270bd56c..000000000 Binary files a/PW38_2023_GranCanaria/Projects/SlicerLiver/liver_resection.mp4 and /dev/null differ diff --git a/PW38_2023_GranCanaria/Projects/SlicerLiver/planning.webm b/PW38_2023_GranCanaria/Projects/SlicerLiver/planning.webm deleted file mode 100644 index 40ad004c7..000000000 Binary files a/PW38_2023_GranCanaria/Projects/SlicerLiver/planning.webm and /dev/null differ