# Support

**URL:** https://discourse.slicer.org/c/support/11.md?page=54

[Latest](https://discourse.slicer.org/latest.md) · [Categories](https://discourse.slicer.org/categories.md) · [Tags](https://discourse.slicer.org/tags.md)

**Page:** 55

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## [I want to download line profile?](https://discourse.slicer.org/t/i-want-to-download-line-profile/41478)

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**Author:** [@Vikram](https://discourse.slicer.org/u/Vikram)\
**Replies:** 1\
**Last updated:** [February 4, 2025, 3:07am UTC](https://discourse.slicer.org/t/i-want-to-download-line-profile/41478 "2025-02-04T03:07:13Z")

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Hello , i am trying to install line profile , i searched in extension there is no line profile. any one can help me

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## [Saving files. Have to add file name each time](https://discourse.slicer.org/t/saving-files-have-to-add-file-name-each-time/41477)

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**Author:** [@CTuser](https://discourse.slicer.org/u/CTuser)\
**Replies:** 0\
**Last updated:** [February 4, 2025, 12:54am UTC](https://discourse.slicer.org/t/saving-files-have-to-add-file-name-each-time/41477 "2025-02-04T00:54:18Z")

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When performing multiple measurements on multiple files, I find myself saving data frequently. It would be very helpful if the same file is open, if the save name did not revert to the default after each save. In additio…

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## [No extensions are being built for Linux stable (5.8)](https://discourse.slicer.org/t/no-extensions-are-being-built-for-linux-stable-5-8/41357)

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**Author:** [@muratmaga](https://discourse.slicer.org/u/muratmaga)\
**Replies:** 4\
**Last updated:** [February 4, 2025, 12:03am UTC](https://discourse.slicer.org/t/no-extensions-are-being-built-for-linux-stable-5-8/41357 "2025-02-04T00:03:18Z")

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Cdash does not show any Linux extensions for couple days now…

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## [Skull stripping/ Brain Extraction for canine brains with HDBrainExtraction a/o SwissSkullStripper](https://discourse.slicer.org/t/skull-stripping-brain-extraction-for-canine-brains-with-hdbrainextraction-a-o-swissskullstripper/41472)

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**Author:** [@ma\_apan](https://discourse.slicer.org/u/ma_apan)\
**Replies:** 0\
**Last updated:** [February 3, 2025, 9:04pm UTC](https://discourse.slicer.org/t/skull-stripping-brain-extraction-for-canine-brains-with-hdbrainextraction-a-o-swissskullstripper/41472 "2025-02-03T21:04:47Z")

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I have to extract canine brains from around 60 patients in T1w 3D MRI-images. I tried both options SwissSkullstripper doesn’t extract all brain, but only a small part of the brain (image 1) HD Brain Extraction Tool wor…

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## [How to Integrate Threshold Effect from Segment Editor into a Custom Module](https://discourse.slicer.org/t/how-to-integrate-threshold-effect-from-segment-editor-into-a-custom-module/41334)

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**Author:** [@igi133](https://discourse.slicer.org/u/igi133)\
**Replies:** 8\
**Last updated:** [February 3, 2025, 1:03pm UTC](https://discourse.slicer.org/t/how-to-integrate-threshold-effect-from-segment-editor-into-a-custom-module/41334 "2025-02-03T13:03:30Z")

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Hi everyone, I am currently working on a custom module in 3D Slicer and would like to incorporate the functionality of the “Threshold” effect from the Segment Editor module. My main goal is to allow users to: Set thr…

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## [Questions about Sandbox/Segment Cross-segment Area](https://discourse.slicer.org/t/questions-about-sandbox-segment-cross-segment-area/41035)

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**Author:** [@Magnus\_Wiman](https://discourse.slicer.org/u/Magnus_Wiman)\
**Replies:** 12\
**Last updated:** [February 3, 2025, 10:19am UTC](https://discourse.slicer.org/t/questions-about-sandbox-segment-cross-segment-area/41035 "2025-02-03T10:19:24Z")

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Hello. I´m an absolute newbie to Slicer so forgive me if my questions are a bit daft. I found 3D Slicer by chance searching for a solution to a problem I have. We have a lot of different cylindrical “connectors” that …

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## [Volume inside a mesh](https://discourse.slicer.org/t/volume-inside-a-mesh/41450)

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**Author:** [@Melodicpinpon](https://discourse.slicer.org/u/Melodicpinpon)\
**Replies:** 0\
**Last updated:** [February 2, 2025, 9:58am UTC](https://discourse.slicer.org/t/volume-inside-a-mesh/41450 "2025-02-02T09:58:48Z")

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Hi everyone! Is there a format that combines a mesh and a volume (the one contained in the mesh)? A developer can surely link each mesh to its corresponding volume but isn’t there already a format that gathers these inf…

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## [Error Loading Project Files with Missing .NRRD Files](https://discourse.slicer.org/t/error-loading-project-files-with-missing-nrrd-files/41448)

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**Author:** [@SLDT](https://discourse.slicer.org/u/SLDT)\
**Replies:** 0\
**Last updated:** [February 2, 2025, 4:00am UTC](https://discourse.slicer.org/t/error-loading-project-files-with-missing-nrrd-files/41448 "2025-02-02T04:00:55Z")

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Hello Slicer Community, I have recently encountered a problem loading a few sets of project files that I had a research assistant help me to prepare last year using Slicer 5.2.2. The problem is this: when I try to open …

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## [Total segmentator in 3d Slicer with python script](https://discourse.slicer.org/t/total-segmentator-in-3d-slicer-with-python-script/40251)

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**Author:** [@Benutzer-0815](https://discourse.slicer.org/u/Benutzer-0815)\
**Replies:** 10\
**Last updated:** [February 1, 2025, 7:54pm UTC](https://discourse.slicer.org/t/total-segmentator-in-3d-slicer-with-python-script/40251 "2025-02-01T19:54:20Z")

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Hi there, I am trying to write a python script that uses Totalsegmentator in 3dSlicer, but so far I am not able to make good progress. The aim of using it in 3dslicer instead of standalone is to be able to exctract SUV v…

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## [Transforming a node back to original volume](https://discourse.slicer.org/t/transforming-a-node-back-to-original-volume/33266)

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**Author:** [@Yoyoman](https://discourse.slicer.org/u/Yoyoman)\
**Replies:** 6\
**Last updated:** [February 1, 2025, 10:06am UTC](https://discourse.slicer.org/t/transforming-a-node-back-to-original-volume/33266 "2025-02-01T10:06:42Z")

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Sorry if this question is rather basic. Please direct me to the thread if this topic has already been covered. I did look. This is my typical workflow…I import a DICOM file then centre the volume then rotate the volume,…

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## [Seeking paint bucket tool: Need to manually fill in segmented areas that are not fully enclosed](https://discourse.slicer.org/t/seeking-paint-bucket-tool-need-to-manually-fill-in-segmented-areas-that-are-not-fully-enclosed/41400)

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**Author:** [@connoryamsek](https://discourse.slicer.org/u/connoryamsek)\
**Replies:** 2\
**Last updated:** [January 31, 2025, 12:12pm UTC](https://discourse.slicer.org/t/seeking-paint-bucket-tool-need-to-manually-fill-in-segmented-areas-that-are-not-fully-enclosed/41400 "2025-01-31T12:12:07Z")

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I am 3D printing my friends skull. I did several hours of manual segmentation and have cleaned my model very well… however the thin bone/cartiledge/tissue is definitely trying. Is there a tool I can use that works a…

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## [Is SlicerMorph down?](https://discourse.slicer.org/t/is-slicermorph-down/41401)

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**Author:** [@Barons](https://discourse.slicer.org/u/Barons)\
**Replies:** 1\
**Last updated:** [January 31, 2025, 11:30am UTC](https://discourse.slicer.org/t/is-slicermorph-down/41401 "2025-01-31T11:30:34Z")

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Hi, I’m new to Slicer3D and would like to use SlicerMorph but the webpages don’t work and the extension won’t work - is it no longer available?

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## [ "no attribute 'SafeConfigParser'" during installation.](https://discourse.slicer.org/t/no-attribute-safeconfigparser-during-installation/41403)

<div class="topic-metadata">

**Author:** [@jxwang](https://discourse.slicer.org/u/jxwang)\
**Replies:** 0\
**Last updated:** [January 31, 2025, 11:28am UTC](https://discourse.slicer.org/t/no-attribute-safeconfigparser-during-installation/41403 "2025-01-31T11:28:42Z")

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File “C:\\Users\\User\\AppData\\Local\\Temp\\pip-install-98lxnlgs\\pyradiomics\_9d99062da3f5438592bc77f142141765\\versioneer.py”, line 342, in get\_config\_from\_root parser = configparser.SafeConfigParser() ^^^^^^^^^^^^^^^^^^^^^^…

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## [Unable to create a Docker container using a downloaded 3DSlicer version](https://discourse.slicer.org/t/unable-to-create-a-docker-container-using-a-downloaded-3dslicer-version/41384)

<div class="topic-metadata">

**Author:** [@jhlegarreta](https://discourse.slicer.org/u/jhlegarreta)\
**Replies:** 1\
**Last updated:** [January 31, 2025, 2:16am UTC](https://discourse.slicer.org/t/unable-to-create-a-docker-container-using-a-downloaded-3dslicer-version/41384 "2025-01-31T02:16:10Z")

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Hi, I have been trying to build a Docker image to run a given 3DSlicer version (5.2.2) on an HPC system. Once I have the base installation working, I will be willing to instal SlicerDMRI, UKFTractography and SlicerWMA e…

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## [DICOM patient name not showing in database module](https://discourse.slicer.org/t/dicom-patient-name-not-showing-in-database-module/34368)

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**Author:** [@Michael\_Allen](https://discourse.slicer.org/u/Michael_Allen)\
**Replies:** 15\
**Last updated:** [January 30, 2025, 9:19pm UTC](https://discourse.slicer.org/t/dicom-patient-name-not-showing-in-database-module/34368 "2025-01-30T21:19:14Z")

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Hello, at some point in recent updates the patient name field in the dicom browser has stopped displaying the name. If I right click and view metadata, the name is still there. If I search for the name in the browser, sl…

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## [Tumor Location in Image](https://discourse.slicer.org/t/tumor-location-in-image/41379)

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**Author:** [@sajad\_amiri](https://discourse.slicer.org/u/sajad_amiri)\
**Replies:** 0\
**Last updated:** [January 30, 2025, 5:55pm UTC](https://discourse.slicer.org/t/tumor-location-in-image/41379 "2025-01-30T17:55:02Z")

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I have a dataset of registered images, each with a segmentation, and I want to identify the location of the segmentation in the MRI intensity matrix: X, Y, Z. how it is possible ?

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## [Complete noob wants to 3d print his brain. Scans aren't perfect. Help?](https://discourse.slicer.org/t/complete-noob-wants-to-3d-print-his-brain-scans-arent-perfect-help/41278)

<div class="topic-metadata">

**Author:** [@Snoochers](https://discourse.slicer.org/u/Snoochers)\
**Replies:** 4\
**Last updated:** [January 30, 2025, 2:41pm UTC](https://discourse.slicer.org/t/complete-noob-wants-to-3d-print-his-brain-scans-arent-perfect-help/41278 "2025-01-30T14:41:24Z")

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Hi. I have DICOM files of my brain. There’s a lot of scans in there but many wouldn’t be suitable for a 3D model I think. The best scans seem to be 26 slices going ear to ear and 33 slices going top of head to bottom. I …

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## [I want to save : from dicom to VTK format for comparision T1, T2 Face image](https://discourse.slicer.org/t/i-want-to-save-from-dicom-to-vtk-format-for-comparision-t1-t2-face-image/41371)

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**Author:** [@Hyung\_Min\_Kim](https://discourse.slicer.org/u/Hyung_Min_Kim)\
**Replies:** 0\
**Last updated:** [January 30, 2025, 11:19am UTC](https://discourse.slicer.org/t/i-want-to-save-from-dicom-to-vtk-format-for-comparision-t1-t2-face-image/41371 "2025-01-30T11:19:59Z")

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Hello I’m a newbie user of 3d-slicer. I want to save a face image from a dicom file to a vtk file. I’m reaching out to you because I’ve been searching on my own and can’t seem to find the answer. I want to use the sh…

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## [Best Tools for Bone CT scan](https://discourse.slicer.org/t/best-tools-for-bone-ct-scan/41366)

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**Author:** [@Dimitri\_Gouvoussis](https://discourse.slicer.org/u/Dimitri_Gouvoussis)\
**Replies:** 0\
**Last updated:** [January 30, 2025, 3:08am UTC](https://discourse.slicer.org/t/best-tools-for-bone-ct-scan/41366 "2025-01-30T03:08:27Z")

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Hello, I am using segment editor tolls thresholding and cutting to outline bone structures in a CT scan. I’m wondering if anyone has a more accurate way of outlining these structures t. Thank you! Note: my 3D scan is …

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## [MOOSE dependencies can not be installed - extension does not work](https://discourse.slicer.org/t/moose-dependencies-can-not-be-installed-extension-does-not-work/41359)

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**Author:** [@MaxVs](https://discourse.slicer.org/u/MaxVs)\
**Replies:** 6\
**Last updated:** [January 29, 2025, 4:37pm UTC](https://discourse.slicer.org/t/moose-dependencies-can-not-be-installed-extension-does-not-work/41359 "2025-01-29T16:37:48Z")

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As the newest version 5.9.0 appeard, I found some new extensions. One of these is MOOSE extension, but unfortunatelly it doesnt work. Every time I click install dependencies, I wait even couple hours and nothing happen…

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## [Opening 5.6.2 recon with 5.8.0 version](https://discourse.slicer.org/t/opening-5-6-2-recon-with-5-8-0-version/41349)

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**Author:** [@BaptisteSVD](https://discourse.slicer.org/u/BaptisteSVD)\
**Replies:** 3\
**Last updated:** [January 29, 2025, 4:31pm UTC](https://discourse.slicer.org/t/opening-5-6-2-recon-with-5-8-0-version/41349 "2025-01-29T16:31:38Z")

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Hi, I produce 3D reconstructions using version 5.6.2 of 3D Slicer. Could this cause opening or reading errors if the reconstruction is opened with version 5.8.0 ?Thanks in advance !

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## ["Interaction in 3D Viewer" to align orthogonal planes missing in 5.8.0 update?](https://discourse.slicer.org/t/interaction-in-3d-viewer-to-align-orthogonal-planes-missing-in-5-8-0-update/41360)

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**Author:** [@sck84](https://discourse.slicer.org/u/sck84)\
**Replies:** 1\
**Last updated:** [January 29, 2025, 4:03pm UTC](https://discourse.slicer.org/t/interaction-in-3d-viewer-to-align-orthogonal-planes-missing-in-5-8-0-update/41360 "2025-01-29T16:03:56Z")

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Hi everyone, I used to create a transform and use the “Interaction in 3D Viewer” tool to align structures to the orthogonal planes in Slicer. Following the most recent update, it appears this function has gone away.…

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## [Can't see my segment colors on the 2D CT scan images](https://discourse.slicer.org/t/cant-see-my-segment-colors-on-the-2d-ct-scan-images/41358)

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**Author:** [@Burhaan\_Toor](https://discourse.slicer.org/u/Burhaan_Toor)\
**Replies:** 0\
**Last updated:** [January 29, 2025, 3:09pm UTC](https://discourse.slicer.org/t/cant-see-my-segment-colors-on-the-2d-ct-scan-images/41358 "2025-01-29T15:09:39Z")

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Hello, I have created two segments- one for the femur and one for the right hip bone-which I have left unnamed in the photo. I am able to see the femur segment on my 2D images as the color I have chosen is showing in eac…

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## [Beam Hardening Detection and Correction - CT Head](https://discourse.slicer.org/t/beam-hardening-detection-and-correction-ct-head/41353)

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**Author:** [@JoshOnichino](https://discourse.slicer.org/u/JoshOnichino)\
**Replies:** 0\
**Last updated:** [January 29, 2025, 1:28pm UTC](https://discourse.slicer.org/t/beam-hardening-detection-and-correction-ct-head/41353 "2025-01-29T13:28:32Z")

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Hello everyone, I’m working on a project involving head CT imaging and need to identify and correct artifacts that may interfere with analysis. I’m particularly interested in open-source models or algorithms that can be…

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## [Closed surface area measurement going to 0](https://discourse.slicer.org/t/closed-surface-area-measurement-going-to-0/41299)

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**Author:** [@cgordon\_Slicer](https://discourse.slicer.org/u/cgordon_Slicer)\
**Replies:** 3\
**Last updated:** [January 29, 2025, 12:46pm UTC](https://discourse.slicer.org/t/closed-surface-area-measurement-going-to-0/41299 "2025-01-29T12:46:47Z")

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Hello! I’m trying to measure the surface areas of segmented muscle attachment sites using the Closed Curve (CC) Markups tool. However, whenever I trace too complex or too inwardly bending of a shape, its area automatica…

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## [Accessing information within ImageMetaList](https://discourse.slicer.org/t/accessing-information-within-imagemetalist/41350)

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**Author:** [@Arber\_Demi](https://discourse.slicer.org/u/Arber_Demi)\
**Replies:** 1\
**Last updated:** [January 29, 2025, 11:15am UTC](https://discourse.slicer.org/t/accessing-information-within-imagemetalist/41350 "2025-01-29T11:15:32Z")

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Hello! I am trying to automate a data extraction process from a medical device using python, however I’m having issue extracing the data from a ImageMetaList node after receiving it as a response. Is there a way I’m sup…

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## [How to integrate the dicom data from 3 series](https://discourse.slicer.org/t/how-to-integrate-the-dicom-data-from-3-series/41310)

<div class="topic-metadata">

**Author:** [@cycycy](https://discourse.slicer.org/u/cycycy)\
**Replies:** 4\
**Last updated:** [January 29, 2025, 10:06am UTC](https://discourse.slicer.org/t/how-to-integrate-the-dicom-data-from-3-series/41310 "2025-01-29T10:06:39Z")

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Hello, I am trying to evaluate bone quality using the bone texture module of 3d slicer software (ver.5.6.2) from pre- and post-operative CT scans of a certain surgery. However, not just with 3d slicer, but I am having t…

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## [C/p segmentation](https://discourse.slicer.org/t/c-p-segmentation/41339)

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**Author:** [@BDhoth](https://discourse.slicer.org/u/BDhoth)\
**Replies:** 1\
**Last updated:** [January 29, 2025, 8:21am UTC](https://discourse.slicer.org/t/c-p-segmentation/41339 "2025-01-29T08:21:09Z")

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Is it possible to take a segmentation and c/p it? I segmented 5 pieces of anatomy; however, I needed them aligned to my CT not the MR. Trying to save time from re-segmenting all of them.

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## [Mirroring landmarks across midsagittal plane ](https://discourse.slicer.org/t/mirroring-landmarks-across-midsagittal-plane/41249)

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**Author:** [@sck84](https://discourse.slicer.org/u/sck84)\
**Replies:** 2\
**Last updated:** [January 28, 2025, 8:50pm UTC](https://discourse.slicer.org/t/mirroring-landmarks-across-midsagittal-plane/41249 "2025-01-28T20:50:52Z")

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Hello, I am trying to mirror landmarks applied to one half of a skull across the midsagittal plane. Really, my aim is to landmark half of the skull, and mirror any points that are not on the midsagittal line, so as to c…

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## [VMTK SlicerExtension Multiprocessing](https://discourse.slicer.org/t/vmtk-slicerextension-multiprocessing/41099)

<div class="topic-metadata">

**Author:** [@Tracy](https://discourse.slicer.org/u/Tracy)\
**Replies:** 7\
**Last updated:** [January 28, 2025, 8:40pm UTC](https://discourse.slicer.org/t/vmtk-slicerextension-multiprocessing/41099 "2025-01-28T20:40:27Z")

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Hi, I have a python pipeline that utilizes several functions, such as ExtractCenterline and ClipVessel, from the SlicerExtension-VMTK (GitHub - vmtk/SlicerExtension-VMTK) for analyzing vessel segmentation. Since I need …

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