# \#markups-fiducials **URL:** https://discourse.slicer.org/tag/markups-fiducials/115.md [Latest](https://discourse.slicer.org/latest.md) · [Categories](https://discourse.slicer.org/categories.md) · [Tags](https://discourse.slicer.org/tags.md) --- ## [Question on Segmentation and Smoothing a Gecko Skull](https://discourse.slicer.org/t/question-on-segmentation-and-smoothing-a-gecko-skull/47990)
**Author:** [@GBurkin](https://discourse.slicer.org/u/GBurkin)\ **Replies:** 2\ **Last updated:** [August 26, 2026, 6:51pm UTC](https://discourse.slicer.org/t/question-on-segmentation-and-smoothing-a-gecko-skull/47990 "2026-08-26T18:51:15Z")
Hello, I’m working with CT scans of small geckos, and I’m working on segmenting their skulls and full skeletons. I have mostly taught myself how to segment via YouTube and help pages, but most of these are focused on hu… --- ## [Hollow 2d markups in slice views](https://discourse.slicer.org/t/hollow-2d-markups-in-slice-views/45754)
**Author:** [@TomOssability](https://discourse.slicer.org/u/TomOssability)\ **Replies:** 2\ **Last updated:** [January 13, 2026, 12:28am UTC](https://discourse.slicer.org/t/hollow-2d-markups-in-slice-views/45754 "2026-01-13T00:28:56Z")
Hi, I understand support for 2D operations is limited due to this platform being mostly used for 3D tasks. However, I am developing a python extension that requires key point placement in single slice views, for which I … --- ## [Include functionality of control point status in custom scripted module](https://discourse.slicer.org/t/include-functionality-of-control-point-status-in-custom-scripted-module/45658)
**Author:** [@W.J.Heerink](https://discourse.slicer.org/u/W.J.Heerink)\ **Replies:** 6\ **Last updated:** [January 12, 2026, 4:34pm UTC](https://discourse.slicer.org/t/include-functionality-of-control-point-status-in-custom-scripted-module/45658 "2026-01-12T16:34:08Z")
Hi, I really like the use of the control point status as it is implemented in the Markups module. I mainly use the functionality of the buttons in the column of the table to change the status of individual control points… --- ## [Mirroring landmarks prior to GPA](https://discourse.slicer.org/t/mirroring-landmarks-prior-to-gpa/44457)
**Author:** [@macorreia42](https://discourse.slicer.org/u/macorreia42)\ **Replies:** 2\ **Last updated:** [September 12, 2025, 2:57pm UTC](https://discourse.slicer.org/t/mirroring-landmarks-prior-to-gpa/44457 "2025-09-12T14:57:56Z")
Dear Support, I have a number of incomplete mandibles on which I have placed landmarks prior to GM analyses. For each one, I only placed landmarks on the most complete side, so some .mrk.json have landmarks on a left ma… --- ## [Sandbox extension and Slicer version 5.8.1](https://discourse.slicer.org/t/sandbox-extension-and-slicer-version-5-8-1/44410)
**Author:** [@patpaul](https://discourse.slicer.org/u/patpaul)\ **Replies:** 2\ **Last updated:** [September 10, 2025, 7:33am UTC](https://discourse.slicer.org/t/sandbox-extension-and-slicer-version-5-8-1/44410 "2025-09-10T07:33:54Z")
Hi all, a little new to slicer. I am trying to create a plane using my three point fiducial list but slicer version 5.8.1 doesn’t have the feature. I installed sandbox and slicerigt extension but I can’t find it in the s… --- ## [Can I export the data for multiple points at once?](https://discourse.slicer.org/t/can-i-export-the-data-for-multiple-points-at-once/42189)
**Author:** [@MIZ](https://discourse.slicer.org/u/MIZ)\ **Replies:** 8\ **Last updated:** [July 2, 2025, 1:13am UTC](https://discourse.slicer.org/t/can-i-export-the-data-for-multiple-points-at-once/42189 "2025-07-02T01:13:35Z")
I am landmarking approximately 44 points in a mesh. Exporting the x,y,z coordinates into an .fcsv file is extremely laborious. Is there any way to export the data for all 44 points simultaneously? Also, it would be great… --- ## [Making Markups and Exporting json in just one screen](https://discourse.slicer.org/t/making-markups-and-exporting-json-in-just-one-screen/43551)
**Author:** [@Davi\_Pultrini](https://discourse.slicer.org/u/Davi_Pultrini)\ **Replies:** 1\ **Last updated:** [June 30, 2025, 7:32pm UTC](https://discourse.slicer.org/t/making-markups-and-exporting-json-in-just-one-screen/43551 "2025-06-30T19:32:04Z")
Hello, I would like to build a module so that there is a screen where the person presses a button and the image loads, he makes the markings and presses a button to save the labels. But before doing the module, I want t… --- ## [Help with Landmark placement: Not actually placed on PLY surface](https://discourse.slicer.org/t/help-with-landmark-placement-not-actually-placed-on-ply-surface/43492)
**Author:** [@jsguerra](https://discourse.slicer.org/u/jsguerra)\ **Replies:** 9\ **Last updated:** [June 26, 2025, 3:54pm UTC](https://discourse.slicer.org/t/help-with-landmark-placement-not-actually-placed-on-ply-surface/43492 "2025-06-26T15:54:20Z")
Hello! I was placing some landmarks on a PLY surface and noticed that when I place/reposition a landmark to my desired position (Fig. 2), the landmark is not actually touching the model surface (Fig. 2). Is this normal o… --- ## [How to export all my JSON markup files into one table without running a GPA on it](https://discourse.slicer.org/t/how-to-export-all-my-json-markup-files-into-one-table-without-running-a-gpa-on-it/42510)
**Author:** [@grega](https://discourse.slicer.org/u/grega)\ **Replies:** 4\ **Last updated:** [April 10, 2025, 2:55pm UTC](https://discourse.slicer.org/t/how-to-export-all-my-json-markup-files-into-one-table-without-running-a-gpa-on-it/42510 "2025-04-10T14:55:04Z")
I need to get a CSV table that includes the coordinates for all my landmarks in one CSV file. I have about 150 JSON files that all have 32 landmark coordinates in them, and normally I would do this by running a GPA throu… --- ## [How to creat a plane according 2 points](https://discourse.slicer.org/t/how-to-creat-a-plane-according-2-points/29710)
**Author:** [@slicer365](https://discourse.slicer.org/u/slicer365)\ **Replies:** 11\ **Last updated:** [February 20, 2025, 7:39am UTC](https://discourse.slicer.org/t/how-to-creat-a-plane-according-2-points/29710 "2025-02-20T07:39:49Z")
Dear friends I know there are many ways in slicer to creat a plane Then how to use two points to create a plane that passes through the middle point of these two points and is perpendicular to the line formed by the tw… --- ## [Issue with ProjectSemiLM](https://discourse.slicer.org/t/issue-with-projectsemilm/41438)
**Author:** [@Dlmeyer](https://discourse.slicer.org/u/Dlmeyer)\ **Replies:** 5\ **Last updated:** [February 6, 2025, 6:14pm UTC](https://discourse.slicer.org/t/issue-with-projectsemilm/41438 "2025-02-06T18:14:26Z")
Hello, I am trying to use the ProjectSemiLM utility to project a field of pseudolandmarks across my dataset of Squamate wrist elements. I have manually placed 6 orientation landmarks on each element, and have selected on… --- ## [Is it possible to create a 3D mesh based on pseudolandmarks from pseudoLMGenerator](https://discourse.slicer.org/t/is-it-possible-to-create-a-3d-mesh-based-on-pseudolandmarks-from-pseudolmgenerator/41014)
**Author:** [@lv\_xiao](https://discourse.slicer.org/u/lv_xiao)\ **Replies:** 1\ **Last updated:** [January 9, 2025, 4:29pm UTC](https://discourse.slicer.org/t/is-it-possible-to-create-a-3d-mesh-based-on-pseudolandmarks-from-pseudolmgenerator/41014 "2025-01-09T16:29:41Z")
Dear all, I am using pseudoLMGenerator to create pseudolandmarks based on a 3D mesh of human mandible. Is it possible to triangulate the created pseudolandmarks to form a mesh of human mandible? I wish the created new m… --- ## [Problem merging SemiLMPatches](https://discourse.slicer.org/t/problem-merging-semilmpatches/37971)
**Author:** [@zifangx](https://discourse.slicer.org/u/zifangx)\ **Replies:** 4\ **Last updated:** [October 4, 2024, 3:29pm UTC](https://discourse.slicer.org/t/problem-merging-semilmpatches/37971 "2024-10-04T15:29:40Z")
Hi, I am trying to apply surface landmarks across a region of interest in a lizard cranium, utilizing the CreateSemiLMPatches module of SlicerMorph. When I try to merge the SemiLMPatches (screenshot1) into one single nod… --- ## [Create a markup line after fiducial points being placed](https://discourse.slicer.org/t/create-a-markup-line-after-fiducial-points-being-placed/38402)
**Author:** [@Kuan\_Yi\_Wang](https://discourse.slicer.org/u/Kuan_Yi_Wang)\ **Replies:** 0\ **Last updated:** [September 16, 2024, 7:40pm UTC](https://discourse.slicer.org/t/create-a-markup-line-after-fiducial-points-being-placed/38402 "2024-09-16T19:40:16Z")
I am working on a Python extension and was wondering how I could first drop any amount of fiducial nodes and then connect them manually with a line while showing the measurement? Thank you so much. --- ## [Convert .PTS landmarks coordinates in .fcsv or .LPS format](https://discourse.slicer.org/t/convert-pts-landmarks-coordinates-in-fcsv-or-lps-format/37303)
**Author:** [@ATroyelli](https://discourse.slicer.org/u/ATroyelli)\ **Replies:** 4\ **Last updated:** [July 18, 2024, 7:05pm UTC](https://discourse.slicer.org/t/convert-pts-landmarks-coordinates-in-fcsv-or-lps-format/37303 "2024-07-18T19:05:58Z")
Hi! Is it possible to transform a file of .PTS landmark coordinates into .fcsv or .LPS/.RAS format? I have landmarks coordinated in .TPS to use as templates in ALPACA. Thank you very much in advance Adrian Operating … --- ## ["Constrain points to surface" feature ](https://discourse.slicer.org/t/constrain-points-to-surface-feature/36632)
**Author:** [@taylorfisher](https://discourse.slicer.org/u/taylorfisher)\ **Replies:** 2\ **Last updated:** [June 9, 2024, 11:14pm UTC](https://discourse.slicer.org/t/constrain-points-to-surface-feature/36632 "2024-06-09T23:14:36Z")
Operating system: 3D Slicer Slicer version: 5.6.1 Expected behavior: My colleague has an older version of 3D slicer. In Markups → Resample section he has an option of “constrain points to surface” Actual behavior: I c… --- ## [Suggested change to the Markups module- multiple export](https://discourse.slicer.org/t/suggested-change-to-the-markups-module-multiple-export/35658)
**Author:** [@Logan\_Moore](https://discourse.slicer.org/u/Logan_Moore)\ **Replies:** 9\ **Last updated:** [April 29, 2024, 7:11pm UTC](https://discourse.slicer.org/t/suggested-change-to-the-markups-module-multiple-export/35658 "2024-04-29T19:11:43Z")
Hi all, In my cursory search, I did not find older posts suggesting this, so I thought it would be nice to bring it up. @lassoan would it be possible to add an additional export selection or option to the Markups module… --- ## [Shortcut to go to markup?](https://discourse.slicer.org/t/shortcut-to-go-to-markup/34886)
**Author:** [@Inka\_Saraswati](https://discourse.slicer.org/u/Inka_Saraswati)\ **Replies:** 1\ **Last updated:** [March 14, 2024, 12:19pm UTC](https://discourse.slicer.org/t/shortcut-to-go-to-markup/34886 "2024-03-14T12:19:32Z")
Hi, I’m new to Slicer. This is might be a stupid question but is there a way to quickly go to certain Markups (points, lines, etc) instead of scrolling through all the slices? Thank you! --- ## [Extract RAS coordinates by clicking](https://discourse.slicer.org/t/extract-ras-coordinates-by-clicking/33531)
**Author:** [@SANTIAGO\_PENDON\_MING](https://discourse.slicer.org/u/SANTIAGO_PENDON_MING)\ **Replies:** 2\ **Last updated:** [February 7, 2024, 11:53am UTC](https://discourse.slicer.org/t/extract-ras-coordinates-by-clicking/33531 "2024-02-07T11:53:26Z")
Hi to everyone :slight\_smile: Today I want to extract RAS coordinates to 3d markups/curves to click. My goal is interact with 3d view (if is not possible, interact with 2d views would great too). Processing the click I… --- ## [Getting linear distances between fiducial landmarks](https://discourse.slicer.org/t/getting-linear-distances-between-fiducial-landmarks/33065)
**Author:** [@paleomariomm](https://discourse.slicer.org/u/paleomariomm)\ **Replies:** 3\ **Last updated:** [January 16, 2024, 4:33pm UTC](https://discourse.slicer.org/t/getting-linear-distances-between-fiducial-landmarks/33065 "2024-01-16T16:33:34Z")
I have created 5 fiducial markups in Slicer. I would like to obtain the linear measurements between all of them (two by two). I know that by selecting two points and right clicking we can obtain the linear measurement … --- ## [Python script to create an empty time sequence list](https://discourse.slicer.org/t/python-script-to-create-an-empty-time-sequence-list/33233)
**Author:** [@admarques](https://discourse.slicer.org/u/admarques)\ **Replies:** 0\ **Last updated:** [December 5, 2023, 2:47pm UTC](https://discourse.slicer.org/t/python-script-to-create-an-empty-time-sequence-list/33233 "2023-12-05T14:47:46Z")
I’m working with a CT image dataset containing different time phases. I would like to write a Python script to create an empty time sequence list as a placeholder to have these pre-created lists with specific names and … --- ## [PseudoLMGenerator - unit of Landmarks generated](https://discourse.slicer.org/t/pseudolmgenerator-unit-of-landmarks-generated/32508)
**Author:** [@Vignesh\_Chakravarthy](https://discourse.slicer.org/u/Vignesh_Chakravarthy)\ **Replies:** 6\ **Last updated:** [October 31, 2023, 7:31pm UTC](https://discourse.slicer.org/t/pseudolmgenerator-unit-of-landmarks-generated/32508 "2023-10-31T19:31:21Z")
Hi Dr. Murat, I am using PseudoLMGenerator to get landmarks on the prostate model (slicer 5.2.2). I am attaching the details of the model for reference (surface area and volume are calculated in mm2 and mm3 respectively… --- ## [Translating of a line](https://discourse.slicer.org/t/translating-of-a-line/32001)
**Author:** [@Grigoriy\_Postolskiy](https://discourse.slicer.org/u/Grigoriy_Postolskiy)\ **Replies:** 4\ **Last updated:** [October 3, 2023, 12:59pm UTC](https://discourse.slicer.org/t/translating-of-a-line/32001 "2023-10-03T12:59:40Z")
Hello! I assigned the function of moving a line to the left mouse button. But as a result, the function of moving of individual points of the line stopped working. How can I make it so that when you hover the mouse ove… --- ## [Placing landmarks on meshs with geometric constructions](https://discourse.slicer.org/t/placing-landmarks-on-meshs-with-geometric-constructions/31789)
**Author:** [@Saggittaman](https://discourse.slicer.org/u/Saggittaman)\ **Replies:** 6\ **Last updated:** [September 20, 2023, 2:48pm UTC](https://discourse.slicer.org/t/placing-landmarks-on-meshs-with-geometric-constructions/31789 "2023-09-20T14:48:18Z")
Dear all, I’m working in 3D Slicer to place landmarks on 3D meshs. I would like to apply something like the figure 1. A of this paper in 3D, involving projection and landmark as a geometric construction. What is the be… --- ## [Interactively adding control point with a given label](https://discourse.slicer.org/t/interactively-adding-control-point-with-a-given-label/21598)
**Author:** [@CsatiZoltan](https://discourse.slicer.org/u/CsatiZoltan)\ **Replies:** 35\ **Last updated:** [August 8, 2023, 5:56am UTC](https://discourse.slicer.org/t/interactively-adding-control-point-with-a-given-label/21598 "2023-08-08T05:56:50Z")
I build a user interface in which the user will click on the 3D scene (or the scenes of the three anatomical planes) and a fiducial node control point with a predetermined label will be placed. The problem is that I can… --- ## [Markup - fiducial- changing position](https://discourse.slicer.org/t/markup-fiducial-changing-position/30089)
**Author:** [@hortakc](https://discourse.slicer.org/u/hortakc)\ **Replies:** 5\ **Last updated:** [July 2, 2023, 12:13pm UTC](https://discourse.slicer.org/t/markup-fiducial-changing-position/30089 "2023-07-02T12:13:23Z")
Hello! I need to change the position of some markups (fiducial or landmarks). I am use to do it with ITK Snap because it shows me the lines of the axes crossing my markup to have them as references. More importantly, i… --- ## [Markups - fiducial - keep the moved point visible in all views](https://discourse.slicer.org/t/markups-fiducial-keep-the-moved-point-visible-in-all-views/30088)
**Author:** [@hortakc](https://discourse.slicer.org/u/hortakc)\ **Replies:** 2\ **Last updated:** [June 28, 2023, 3:30am UTC](https://discourse.slicer.org/t/markups-fiducial-keep-the-moved-point-visible-in-all-views/30088 "2023-06-28T03:30:21Z")
Hello! I need to change the position of some markups (fiducial or landmarks). I am use to do it with ITK Snap because it shows me the lines of the axes crossing my markup to have them as references. More importantly, i… --- ## [Markups module lagging when placing anatomical landmarks](https://discourse.slicer.org/t/markups-module-lagging-when-placing-anatomical-landmarks/27529)
**Author:** [@meganfveltri](https://discourse.slicer.org/u/meganfveltri)\ **Replies:** 17\ **Last updated:** [June 20, 2023, 6:48pm UTC](https://discourse.slicer.org/t/markups-module-lagging-when-placing-anatomical-landmarks/27529 "2023-06-20T18:48:02Z")
Hello! I’m hoping to get some clarification on some issues I’ve been having with markups in Slicer. I am very new to using the program so any help is appreciated. I have two ages of mouse skulls (E17.5 and P28) for whic… --- ## [Semilandmarks inside a closed curve](https://discourse.slicer.org/t/semilandmarks-inside-a-closed-curve/29508)
**Author:** [@Pablo\_Gonzalez](https://discourse.slicer.org/u/Pablo_Gonzalez)\ **Replies:** 0\ **Last updated:** [May 17, 2023, 2:35pm UTC](https://discourse.slicer.org/t/semilandmarks-inside-a-closed-curve/29508 "2023-05-17T14:35:25Z")
Hello, I’m trying to generate a series of surface semilandmarks inside a closed curve on a 3d model. Is there a way to do this? I’ve tried several methods to generate similar results like generating semilandmark patches… --- ## [How Can I Do Fiducial Registration using Python?](https://discourse.slicer.org/t/how-can-i-do-fiducial-registration-using-python/29429)
**Author:** [@Berk\_Gezgin](https://discourse.slicer.org/u/Berk_Gezgin)\ **Replies:** 6\ **Last updated:** [May 16, 2023, 5:30pm UTC](https://discourse.slicer.org/t/how-can-i-do-fiducial-registration-using-python/29429 "2023-05-16T17:30:35Z")
I want to merge a DICOM and STL file with the Fiducial Registration method in Python. The files will be opened in an interface, an equal number of points will be placed on the models and merged based on those points. Is … [Next page](https://discourse.slicer.org/tag/markups-fiducials/115.md?match_all_tags=true&page=1&tags%5B%5D=markups-fiducials)