# Support **URL:** https://discourse.slicer.org/c/support/11.md?page=18 [Latest](https://discourse.slicer.org/latest.md) · [Categories](https://discourse.slicer.org/categories.md) · [Tags](https://discourse.slicer.org/tags.md) **Page:** 19 --- ## [ROI-based segmentation in MONAI Label Slicer extension does not work correctly for specific labels](https://discourse.slicer.org/t/roi-based-segmentation-in-monai-label-slicer-extension-does-not-work-correctly-for-specific-labels/45634)

**Author:** [@anuragp2018](https://discourse.slicer.org/u/anuragp2018)\ **Replies:** 0\ **Last updated:** [December 30, 2025, 4:27am UTC](https://discourse.slicer.org/t/roi-based-segmentation-in-monai-label-slicer-extension-does-not-work-correctly-for-specific-labels/45634 "2025-12-30T04:27:57Z")

Problem Description I am using the MONAI Label Slicer extension to perform ROI-based segmentation for a specific label. Although the ROI is drawn correctly in Slicer, the segmentation result does not respect the selecte… --- ## [Convert MRI from DICOM (exported by syngo.via) to NRRD](https://discourse.slicer.org/t/convert-mri-from-dicom-exported-by-syngo-via-to-nrrd/2555)

**Author:** [@Tommaso\_Di\_Noto](https://discourse.slicer.org/u/Tommaso_Di_Noto)\ **Replies:** 28\ **Last updated:** [December 24, 2025, 6:00pm UTC](https://discourse.slicer.org/t/convert-mri-from-dicom-exported-by-syngo-via-to-nrrd/2555 "2025-12-24T18:00:15Z")

Hello everyone! I have a series of MRI cardiac images (more specifically I have the most significant slice for each patient; i.e. one image for each patient). I have extracted all these images with the software Siemens … --- ## [New feature: Support of 5D images and transforms](https://discourse.slicer.org/t/new-feature-support-of-5d-images-and-transforms/45588)

**Author:** [@lassoan](https://discourse.slicer.org/u/lassoan)\ **Replies:** 2\ **Last updated:** [December 23, 2025, 3:22pm UTC](https://discourse.slicer.org/t/new-feature-support-of-5d-images-and-transforms/45588 "2025-12-23T15:22:19Z")

3D Slicer has expanded its capabilities to support reading and writing images, image sequences, and transform sequences with dimensionality up to 5D. This is a significant enhancement that enables users to work with larg… --- ## [Coronaries Calcification](https://discourse.slicer.org/t/coronaries-calcification/19246)

**Author:** [@Elias\_Karabelas](https://discourse.slicer.org/u/Elias_Karabelas)\ **Replies:** 15\ **Last updated:** [December 23, 2025, 7:53am UTC](https://discourse.slicer.org/t/coronaries-calcification/19246 "2025-12-23T07:53:03Z")

Dear Team, I managed to segment an aorta and a coronary tree with VMTK and Slicer. However for my case I would also like to extract calcifications present in the coronaries. I managed to threshold the calcifications, bu… --- ## [The GUI of Slicer 5.10.0 seems to be unexpectedly scaled.](https://discourse.slicer.org/t/the-gui-of-slicer-5-10-0-seems-to-be-unexpectedly-scaled/45582)

**Author:** [@20zzyw](https://discourse.slicer.org/u/20zzyw)\ **Replies:** 1\ **Last updated:** [December 22, 2025, 4:42pm UTC](https://discourse.slicer.org/t/the-gui-of-slicer-5-10-0-seems-to-be-unexpectedly-scaled/45582 "2025-12-22T16:42:42Z")

Problem report for 3D Slicer 5.10.0 win-amd64: Hi! As I upgrade my Slicer from 5.8.2 to 5.10, everything on the GUI look giant, but only font could be adjusted in Application Settings. Could you please tell me is there … --- ## [How to measure vessel diameter](https://discourse.slicer.org/t/how-to-measure-vessel-diameter/13713)

**Author:** [@Hamid](https://discourse.slicer.org/u/Hamid)\ **Replies:** 6\ **Last updated:** [December 22, 2025, 12:37am UTC](https://discourse.slicer.org/t/how-to-measure-vessel-diameter/13713 "2025-12-22T00:37:44Z")

I need to measure the diameters of vessels(Descending aorta and 3 vertebral arteries) in my segmented model.How can I do that?Do I need any Extension? --- ## [Removal of Lightbox Mode](https://discourse.slicer.org/t/removal-of-lightbox-mode/45227)

**Author:** [@dokay1](https://discourse.slicer.org/u/dokay1)\ **Replies:** 3\ **Last updated:** [December 21, 2025, 8:20pm UTC](https://discourse.slicer.org/t/removal-of-lightbox-mode/45227 "2025-12-21T20:20:00Z")

I’ve just installed Version 5.10.0 to realize that Lightbox view was removed. While I understand that many don’t use it, it was the single most helpful image review setting. It allows one to review and compare thick sli… --- ## [Segmentation tooth in jaw](https://discourse.slicer.org/t/segmentation-tooth-in-jaw/45550)

**Author:** [@Dr.Hunz](https://discourse.slicer.org/u/Dr.Hunz)\ **Replies:** 1\ **Last updated:** [December 21, 2025, 1:11pm UTC](https://discourse.slicer.org/t/segmentation-tooth-in-jaw/45550 "2025-12-21T13:11:40Z")

I need to help about segment the tooth in Jaw file STL. Please help me, thank youuuu so much. --- ## [CTA Willis registration failure](https://discourse.slicer.org/t/cta-willis-registration-failure/45470)

**Author:** [@Peter\_Jan](https://discourse.slicer.org/u/Peter_Jan)\ **Replies:** 12\ **Last updated:** [December 20, 2025, 8:27am UTC](https://discourse.slicer.org/t/cta-willis-registration-failure/45470 "2025-12-20T08:27:00Z")

Hello everyone, my goal is to register CTA Circle of Willis examinations of two patients acquired with a 4-year interval, using the skull as a reference, in order to evaluate changes in the position of the arterial tree… --- ## [Margin effect altering multiple segments at once](https://discourse.slicer.org/t/margin-effect-altering-multiple-segments-at-once/45554)

**Author:** [@parmidajafarian](https://discourse.slicer.org/u/parmidajafarian)\ **Replies:** 3\ **Last updated:** [December 20, 2025, 5:58am UTC](https://discourse.slicer.org/t/margin-effect-altering-multiple-segments-at-once/45554 "2025-12-20T05:58:17Z")

Hi everyone, I’m running into a problem while trying to use the margin effect in the segment editor. My goal is to create a shrunken copy of a Brain segment for CSF segmentation without altering the original Brain segme… --- ## [Apply filters to a CT scan to deal with high-contrast elements](https://discourse.slicer.org/t/apply-filters-to-a-ct-scan-to-deal-with-high-contrast-elements/45561)

**Author:** [@Francesca\_Parrotta](https://discourse.slicer.org/u/Francesca_Parrotta)\ **Replies:** 1\ **Last updated:** [December 19, 2025, 10:59pm UTC](https://discourse.slicer.org/t/apply-filters-to-a-ct-scan-to-deal-with-high-contrast-elements/45561 "2025-12-19T22:59:13Z")

Good morning everyone, I am workin with CT scans as the one attached (I am attaching just one slice of the CT). My objective is to recognize and segment all the different layers in the scanned structure. As you can see,… --- ## [Process to Import an STL File and Convert/Export a Series of DICOM Files?](https://discourse.slicer.org/t/process-to-import-an-stl-file-and-convert-export-a-series-of-dicom-files/9906)

**Author:** [@aleesdesigner](https://discourse.slicer.org/u/aleesdesigner)\ **Replies:** 19\ **Last updated:** [December 19, 2025, 7:38pm UTC](https://discourse.slicer.org/t/process-to-import-an-stl-file-and-convert-export-a-series-of-dicom-files/9906 "2025-12-19T19:38:26Z")

Hi, I’m hoping someone can help with a workflow to import an STL file into Slicer, convert it to a series of DICOM files and export those DICOM files. I’ve checked other forums and can’t find anything that gives a step-… --- ## [Apply filters to a CT scan to deal with high-contrast elements](https://discourse.slicer.org/t/apply-filters-to-a-ct-scan-to-deal-with-high-contrast-elements/45560)

**Author:** [@Francesca\_Parrotta](https://discourse.slicer.org/u/Francesca_Parrotta)\ **Replies:** 0\ **Last updated:** [December 19, 2025, 12:49pm UTC](https://discourse.slicer.org/t/apply-filters-to-a-ct-scan-to-deal-with-high-contrast-elements/45560 "2025-12-19T12:49:15Z")

Good morning everyone, I am workin with CT scans as the one attached (I am attaching just one slice of the CT). My objective is to recognize and segment all the different layers in the scanned structure. As you can see,… --- ## [Clarification on Segment Statistics: Surface Area vs. Cross-Sectional Area (CSA) for Muscle Analysis](https://discourse.slicer.org/t/clarification-on-segment-statistics-surface-area-vs-cross-sectional-area-csa-for-muscle-analysis/45558)

**Author:** [@GaetanoGazze](https://discourse.slicer.org/u/GaetanoGazze)\ **Replies:** 0\ **Last updated:** [December 19, 2025, 12:48pm UTC](https://discourse.slicer.org/t/clarification-on-segment-statistics-surface-area-vs-cross-sectional-area-csa-for-muscle-analysis/45558 "2025-12-19T12:48:57Z")

Hi everyone, I am performing a quantitative body composition analysis on single-slice CT scans (at the D10 level) using the Segment Statistics module in 3D Slicer. I would like to clarify a methodological doubt to ensur… --- ## [2D cine not playing when converted to nifti from dicom](https://discourse.slicer.org/t/2d-cine-not-playing-when-converted-to-nifti-from-dicom/45557)

**Author:** [@Nshehata](https://discourse.slicer.org/u/Nshehata)\ **Replies:** 0\ **Last updated:** [December 19, 2025, 12:48pm UTC](https://discourse.slicer.org/t/2d-cine-not-playing-when-converted-to-nifti-from-dicom/45557 "2025-12-19T12:48:44Z")

Operating system: Linux also MacOS Slicer version: 5.8.1 Expected behavior: Play button to be enabled when importing as DICOM Actual behavior: Play button disabled and fixed on one slice only I thought maybe the prob… --- ## [2D cine not playing when converted to nifti from dicom](https://discourse.slicer.org/t/2d-cine-not-playing-when-converted-to-nifti-from-dicom/45555)

Operating system: Linux also MacOS Slicer version: 5.8.1 Expected behavior: Play button to be enabled when importing as DICOM Actual behavior: Play button disabled and fixed on one slice only I thought maybe the prob… --- ## [Unable to load multi-volume (4D) Nifti data](https://discourse.slicer.org/t/unable-to-load-multi-volume-4d-nifti-data/1322)

**Author:** [@atbauman](https://discourse.slicer.org/u/atbauman)\ **Replies:** 3\ **Last updated:** [December 18, 2025, 8:59pm UTC](https://discourse.slicer.org/t/unable-to-load-multi-volume-4d-nifti-data/1322 "2025-12-18T20:59:20Z")

I am very new to Slicer, so I apologize for my ignorance. When I load 4D data into slicer, it is not detecting multiple volumes, it only shows the first volume. Is there any setup that needs to be done prior to loading i… --- ## [V5.10 crash on startup (Splash Screen)](https://discourse.slicer.org/t/v5-10-crash-on-startup-splash-screen/45515)

**Author:** [@GaryPlayer](https://discourse.slicer.org/u/GaryPlayer)\ **Replies:** 9\ **Last updated:** [December 18, 2025, 12:01am UTC](https://discourse.slicer.org/t/v5-10-crash-on-startup-splash-screen/45515 "2025-12-18T00:01:12Z")

I have a grader that when starting slicer, gets the splash screen and then nothing. (Windows 11) We uninstalled, reinstalled, upgraded to 5.10 Tried to reinstall in a simple directory (no spaces) I tried to run the –… --- ## [Export segmentation to Osirix](https://discourse.slicer.org/t/export-segmentation-to-osirix/19646)

**Author:** [@melindamareesmith](https://discourse.slicer.org/u/melindamareesmith)\ **Replies:** 16\ **Last updated:** [December 17, 2025, 10:08pm UTC](https://discourse.slicer.org/t/export-segmentation-to-osirix/19646 "2025-12-17T22:08:46Z")

Hello, I am trying to combine datasets that measure muscle size from MRI with a colleague. I have segmented muscles in 3D Slicer, my colleague has segmented muscles in Osirix. Osirix seems limited in ability to export … --- ## [Problems with certain buttons in the edited segment of a custom slicer!!!!!](https://discourse.slicer.org/t/problems-with-certain-buttons-in-the-edited-segment-of-a-custom-slicer/45513)

**Author:** [@GiorgioSimonetto](https://discourse.slicer.org/u/GiorgioSimonetto)\ **Replies:** 0\ **Last updated:** [December 16, 2025, 3:59pm UTC](https://discourse.slicer.org/t/problems-with-certain-buttons-in-the-edited-segment-of-a-custom-slicer/45513 "2025-12-16T15:59:51Z")

Hello. I am Giorgio, a biomedical engineering student in Verona, and I am working with 3D Slicer for an internship. My task is to create a custom Slicer application. I am trying to integrate the Segment Editor window in… --- ## [High RMS error during pivot calibration with Vicon/Qualisys](https://discourse.slicer.org/t/high-rms-error-during-pivot-calibration-with-vicon-qualisys/45443)

**Author:** [@AurelieS](https://discourse.slicer.org/u/AurelieS)\ **Replies:** 6\ **Last updated:** [December 16, 2025, 12:01pm UTC](https://discourse.slicer.org/t/high-rms-error-during-pivot-calibration-with-vicon-qualisys/45443 "2025-12-16T12:01:10Z")

Dear Slicer team, We succeeded in integrating live Qualisys and VICON data into Slicer using IGT (I will go back to you for this code and integration). However during the pivot calibration of the stylus using the Quali… --- ## [Mouse movement causes screen flickering in 2D views after using slicer.modules.segmentations.logic().ImportLabelmapToSegmentationNodeWithTerminology()](https://discourse.slicer.org/t/mouse-movement-causes-screen-flickering-in-2d-views-after-using-slicer-modules-segmentations-logic-importlabelmaptosegmentationnodewithterminology/44030)

**Author:** [@baderstine](https://discourse.slicer.org/u/baderstine)\ **Replies:** 6\ **Last updated:** [December 16, 2025, 9:40am UTC](https://discourse.slicer.org/t/mouse-movement-causes-screen-flickering-in-2d-views-after-using-slicer-modules-segmentations-logic-importlabelmaptosegmentationnodewithterminology/44030 "2025-12-16T09:40:59Z")

When I add a node using slicer.modules.segmentations.logic().ImportLabelmapToSegmentationNode() everything is normal. However, when I use slicer.modules.segmentations.logic().ImportLabelmapToSegmentationNodeWithTerminolo… --- ## [GPU based volume rendering fails if one dimension is more than 2000px](https://discourse.slicer.org/t/gpu-based-volume-rendering-fails-if-one-dimension-is-more-than-2000px/6546)

**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\ **Replies:** 33\ **Last updated:** [December 16, 2025, 6:16am UTC](https://discourse.slicer.org/t/gpu-based-volume-rendering-fails-if-one-dimension-is-more-than-2000px/6546 "2025-12-16T06:16:39Z")

I can consistently reproduce this on Linux and Windows on various versions of Slicer. On Linux I can capture the error (not through Slicer, but from the log of the virtualGL) something to do with opengl\_max\_texture limi… --- ## [Linear transform not appearing anymore as a driver in IGT Volume Reslicer Driver](https://discourse.slicer.org/t/linear-transform-not-appearing-anymore-as-a-driver-in-igt-volume-reslicer-driver/45497)

**Author:** [@spichardo](https://discourse.slicer.org/u/spichardo)\ **Replies:** 1\ **Last updated:** [December 16, 2025, 5:35am UTC](https://discourse.slicer.org/t/linear-transform-not-appearing-anymore-as-a-driver-in-igt-volume-reslicer-driver/45497 "2025-12-16T05:35:57Z")

Hi, I got this new issue in r5.10.0 of 3DSlicer and SlicerIGT (Revision: 71e2153). I create a new linear transformation to be used in the IGT Volume Reslicer Driver, but the linear transform does not appear in the list… --- ## [PlusServerLauncher log displaying error concerning loading Echowave US settings](https://discourse.slicer.org/t/plusserverlauncher-log-displaying-error-concerning-loading-echowave-us-settings/45501)

**Author:** [@daandevlieger2-alt](https://discourse.slicer.org/u/daandevlieger2-alt)\ **Replies:** 0\ **Last updated:** [December 15, 2025, 8:50pm UTC](https://discourse.slicer.org/t/plusserverlauncher-log-displaying-error-concerning-loading-echowave-us-settings/45501 "2025-12-15T20:50:12Z")

Hi everyone We’re currently performing the 3D freehand ultrasound setup with 3D slicer (5.6.2), optitrack V120 trio (motive 3.1.0), echowowave 4.2.2 (Telemed Artus and LF11 probe) and PlusApp-2.9.0.20251014-Telemed-Win6… --- ## [Interpreting ANTs registration warp field directionality](https://discourse.slicer.org/t/interpreting-ants-registration-warp-field-directionality/45467)

**Author:** [@lucinda](https://discourse.slicer.org/u/lucinda)\ **Replies:** 3\ **Last updated:** [December 15, 2025, 7:07pm UTC](https://discourse.slicer.org/t/interpreting-ants-registration-warp-field-directionality/45467 "2025-12-15T19:07:22Z")

Hi! I am aiming to use 3DSlicer to visualize the effects of 3d transforms created with antsRegistration. The registration didn’t include any rigid or affine stages, just one SyN stage. I’ve confirmed that the forward and… --- ## [cbct distortion](https://discourse.slicer.org/t/cbct-distortion/45493)

**Author:** [@seda\_ozdemir](https://discourse.slicer.org/u/seda_ozdemir)\ **Replies:** 1\ **Last updated:** [December 15, 2025, 1:36pm UTC](https://discourse.slicer.org/t/cbct-distortion/45493 "2025-12-15T13:36:32Z")

In 3D Slicer version 5.10.0, when we load a CBCT with a 24 × 19 mm FOV, distortion occurs in the sagittal and coronal slice views. How can we resolve this issue? --- ## [Auto skeleton to trajectory mv3d file](https://discourse.slicer.org/t/auto-skeleton-to-trajectory-mv3d-file/45487)

**Author:** [@kuoi](https://discourse.slicer.org/u/kuoi)\ **Replies:** 0\ **Last updated:** [December 15, 2025, 5:18am UTC](https://discourse.slicer.org/t/auto-skeleton-to-trajectory-mv3d-file/45487 "2025-12-15T05:18:56Z")

Hello, I am thinking that a commercial software called Avizo could do auto skeleton and output the trajectory as mv3d (MicroVisu3D) file mv3d header looks like this # MicroVisu3D file # Number of lines 1 # Number of … --- ## [Trouble loading .nrrd file in Slicer 5.10.0 as sequence](https://discourse.slicer.org/t/trouble-loading-nrrd-file-in-slicer-5-10-0-as-sequence/45239)

**Author:** [@gchampa](https://discourse.slicer.org/u/gchampa)\ **Replies:** 9\ **Last updated:** [December 15, 2025, 2:05am UTC](https://discourse.slicer.org/t/trouble-loading-nrrd-file-in-slicer-5-10-0-as-sequence/45239 "2025-12-15T02:05:14Z")

when I try and import my .nrrd files as sequences (which they work in slicer 5.8.1) i get an error that slicer cannot read it. They will import as volume but then there is no way to change the colour map, i have tried th… --- ## [Segmentation in Windows 11 extremely slow](https://discourse.slicer.org/t/segmentation-in-windows-11-extremely-slow/45473)

**Author:** [@NSLight](https://discourse.slicer.org/u/NSLight)\ **Replies:** 1\ **Last updated:** [December 13, 2025, 6:51pm UTC](https://discourse.slicer.org/t/segmentation-in-windows-11-extremely-slow/45473 "2025-12-13T18:51:24Z")

Operating System - Windows 11 Slicer 3D Version - 5.8.1 I have been everywhere on the forum, tried different solutions but nothing seems to work. I am working on a dataset (Brain Angio-CT) and trying to segment vessel… [Previous page](https://discourse.slicer.org/c/support/11.md?page=17) [Next page](https://discourse.slicer.org/c/support/11.md?page=19)