# Radiomics

**URL:** https://discourse.slicer.org/c/community/radiomics/23.md

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

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## [About the Radiomics category](https://discourse.slicer.org/t/about-the-radiomics-category/9312)

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**Author:** [@pieper](https://discourse.slicer.org/u/pieper)\
**Replies:** 0

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This group is the replacement for https://groups.google.com/forum/#!forum/pyradiomics

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## [Asking question about GLCM per angle in radiomics](https://discourse.slicer.org/t/asking-question-about-glcm-per-angle-in-radiomics/44967)

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**Author:** [@Nicolas\_hsieh](https://discourse.slicer.org/u/Nicolas_hsieh)\
**Replies:** 16\
**Last updated:** [July 14, 2026, 1:06am UTC](https://discourse.slicer.org/t/asking-question-about-glcm-per-angle-in-radiomics/44967 "2026-07-14T01:06:23Z")

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Hello, I’m new to the Pyradiomics. Recently, I read the document of Pyradiomics. It seems that I can’t use Pyradiomics to calculate GLCM per angle(eg. energy per angles or entropy per angle). Is there any method to calcu…

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## [pyradiomics 3.1.1.dev111+g8ed579383, is it safe?](https://discourse.slicer.org/t/pyradiomics-3-1-1-dev111-g8ed579383-is-it-safe/47416)

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**Author:** [@aujinen](https://discourse.slicer.org/u/aujinen)\
**Replies:** 3\
**Last updated:** [June 26, 2026, 1:50pm UTC](https://discourse.slicer.org/t/pyradiomics-3-1-1-dev111-g8ed579383-is-it-safe/47416 "2026-06-26T13:50:26Z")

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I downloaded PyRadiomics using git clone https://github.com/AIM-Harvard/pyradiomics and installed it using uv sync according to the contents of “pyproject.toml” with C++ build tools of Microsoft “Build Tools for Visual S…

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## [Normalization of glioblastoma MRI images](https://discourse.slicer.org/t/normalization-of-glioblastoma-mri-images/45629)

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**Author:** [@celiaalme](https://discourse.slicer.org/u/celiaalme)\
**Replies:** 1\
**Last updated:** [June 10, 2026, 3:03am UTC](https://discourse.slicer.org/t/normalization-of-glioblastoma-mri-images/45629 "2026-06-10T03:03:10Z")

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Hi! I’m kinda new to radiomics and don’t know much about image normalization. I want to extract radiomic features from MRI glioblastoma images. I’ve managed to apply an N4ITK bias filter and a z-score normalization, but …

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## [Radiosteriormetric analysis- finding micromotion of knee replacement implant](https://discourse.slicer.org/t/radiosteriormetric-analysis-finding-micromotion-of-knee-replacement-implant/46667)

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**Author:** [@vinothkumar](https://discourse.slicer.org/u/vinothkumar)\
**Replies:** 0\
**Last updated:** [April 6, 2026, 12:18pm UTC](https://discourse.slicer.org/t/radiosteriormetric-analysis-finding-micromotion-of-knee-replacement-implant/46667 "2026-04-06T12:18:11Z")

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radiosteriometric analysis is a method to find metal implants implanted in bone over time. I am doing research on micromotion of knee implant in osteoporotic patients over two years by comparing the distance between meta…

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## [I can't find and download radiomics ](https://discourse.slicer.org/t/i-cant-find-and-download-radiomics/44836)

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**Author:** [@Elaine\_CHEN](https://discourse.slicer.org/u/Elaine_CHEN)\
**Replies:** 0\
**Last updated:** [October 21, 2025, 12:14pm UTC](https://discourse.slicer.org/t/i-cant-find-and-download-radiomics/44836 "2025-10-21T12:14:30Z")

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When using 3D Slicer, I couldn’t find Radiomics in the extension download section, and it was also unavailable on the relevant webpages. I am using the stable version of the 3D Slicer software. How can this situation be…

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## ['Radiomics' not found in Slicer extensions manager](https://discourse.slicer.org/t/radiomics-not-found-in-slicer-extensions-manager/13226)

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**Author:** [@Cody\_Keller](https://discourse.slicer.org/u/Cody_Keller)\
**Replies:** 4\
**Last updated:** [October 21, 2025, 12:06pm UTC](https://discourse.slicer.org/t/radiomics-not-found-in-slicer-extensions-manager/13226 "2025-10-21T12:06:15Z")

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Hello, I’ve newly downloaded the nightly-updating version of Slicer and am unable to find the Radiomics extension in the extensions manager. On the web-based archive, I found the extension for an older version of Slicer…

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## [Is it possible in pyradiomics to normalize only the ROI and not the entire image?](https://discourse.slicer.org/t/is-it-possible-in-pyradiomics-to-normalize-only-the-roi-and-not-the-entire-image/43721)

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**Author:** [@Alessandro\_Ghilardi](https://discourse.slicer.org/u/Alessandro_Ghilardi)\
**Replies:** 0\
**Last updated:** [July 15, 2025, 4:26am UTC](https://discourse.slicer.org/t/is-it-possible-in-pyradiomics-to-normalize-only-the-roi-and-not-the-entire-image/43721 "2025-07-15T04:26:26Z")

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I need to know if there’s a standard way to normalize only the ROI. I tried to create a function to do so but in this case filtered versions of the image would be calculated only after the ROI normalization (which means …

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## [setting up pyradiomics in python3 virtual env't](https://discourse.slicer.org/t/setting-up-pyradiomics-in-python3-virtual-envt/43434)

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**Author:** [@tsc](https://discourse.slicer.org/u/tsc)\
**Replies:** 0\
**Last updated:** [June 20, 2025, 2:47pm UTC](https://discourse.slicer.org/t/setting-up-pyradiomics-in-python3-virtual-envt/43434 "2025-06-20T14:47:41Z")

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I am having some trouble with pyradiomics in my python3 virtual env’t on one particular server. The issue may be that numpy 1.21.5 is present on the server and numpy 2.2.6 is present in the virtual env’t. Pyradiomics …

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## [When I set voxelBased=True and calculate the featureclass of glcm,I meet some problems](https://discourse.slicer.org/t/when-i-set-voxelbased-true-and-calculate-the-featureclass-of-glcm-i-meet-some-problems/28418)

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**Author:** [@duckfen](https://discourse.slicer.org/u/duckfen)\
**Replies:** 0\
**Last updated:** [March 16, 2023, 1:28pm UTC](https://discourse.slicer.org/t/when-i-set-voxelbased-true-and-calculate-the-featureclass-of-glcm-i-meet-some-problems/28418 "2023-03-16T13:28:39Z")

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code: extractor = featureextractor.RadiomicsFeatureExtractor('.yaml') result = extractor.execute(image, mask, voxelBased=True) for key, val in six.iteritems(result): if isinstance(val, sitk.Image): shape = (s…

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## [Input Orientation and Axis Indexing in PyRadiomics (SimpleITK vs NumPy)](https://discourse.slicer.org/t/input-orientation-and-axis-indexing-in-pyradiomics-simpleitk-vs-numpy/42332)

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**Author:** [@valosekj](https://discourse.slicer.org/u/valosekj)\
**Replies:** 7\
**Last updated:** [April 11, 2025, 6:49pm UTC](https://discourse.slicer.org/t/input-orientation-and-axis-indexing-in-pyradiomics-simpleitk-vs-numpy/42332 "2025-04-11T18:49:37Z")

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Is there a specific orientation (axis order) expected by Pyradiomics when processing input images? I’m asking in the context of the opposite axes indexing between numpy/nibabel and SimpleITK : SimpleITK and numpy index…

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## [Speed up Voxel based extraction](https://discourse.slicer.org/t/speed-up-voxel-based-extraction/14787)

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**Author:** [@Alessio\_Romita](https://discourse.slicer.org/u/Alessio_Romita)\
**Replies:** 4\
**Last updated:** [April 7, 2025, 9:41am UTC](https://discourse.slicer.org/t/speed-up-voxel-based-extraction/14787 "2025-04-07T09:41:07Z")

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Hey guys I was wondering if there is any way to speed up the voxel based extraction ? I’m trying to parallelise the extraction for multiple images and It works.But, the speed is too slow and of course if I parallelise to…

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## [Multithreading/Multiprocessing in Pyradiomics](https://discourse.slicer.org/t/multithreading-multiprocessing-in-pyradiomics/42242)

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**Author:** [@annapurna11](https://discourse.slicer.org/u/annapurna11)\
**Replies:** 1\
**Last updated:** [March 21, 2025, 1:14pm UTC](https://discourse.slicer.org/t/multithreading-multiprocessing-in-pyradiomics/42242 "2025-03-21T13:14:59Z")

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Hi everyone! I am working on a project focussed on extraction of radiomic features (GLCM features) for prostrate cancer diagnosis. (Voxel-based). The code is too slow and single-threaded. Scanning of a single image takes…

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## [Problem with GLCM features](https://discourse.slicer.org/t/problem-with-glcm-features/39499)

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**Author:** [@Dimitrios\_Samaras](https://discourse.slicer.org/u/Dimitrios_Samaras)\
**Replies:** 2\
**Last updated:** [December 11, 2024, 3:42pm UTC](https://discourse.slicer.org/t/problem-with-glcm-features/39499 "2024-12-11T15:42:37Z")

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Greetings, I am a 1st year PhD student and I’m currently working on a project involving feature extraction from MRI images for prostate cancer research, and I have some questions. I developed a python script for feature…

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## [Binwidth Optimization](https://discourse.slicer.org/t/binwidth-optimization/15996)

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**Author:** [@Ceylan](https://discourse.slicer.org/u/Ceylan)\
**Replies:** 4\
**Last updated:** [September 10, 2024, 11:40am UTC](https://discourse.slicer.org/t/binwidth-optimization/15996 "2024-09-10T11:40:29Z")

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Hello everyone, I’m trying to extract the radiomic features from MR images using Pyradiomics extension on 3DSlicer. I know that the default setting for the binwidth is 25. However, I am not sure which value is more sui…

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## [Please help me with SlicerRadiomics parameters file](https://discourse.slicer.org/t/please-help-me-with-slicerradiomics-parameters-file/37935)

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**Author:** [@hongneo55](https://discourse.slicer.org/u/hongneo55)\
**Replies:** 0\
**Last updated:** [August 18, 2024, 11:22pm UTC](https://discourse.slicer.org/t/please-help-me-with-slicerradiomics-parameters-file/37935 "2024-08-18T23:22:16Z")

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I am having difficulty creating a parameter file. Struggling to make a file capable of → filter types: original, square, logarithm, exponential, wavelet feature types: first order, texture, shape It would be greatl…

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## [Using LoG filter in PyRadiomics](https://discourse.slicer.org/t/using-log-filter-in-pyradiomics/37772)

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**Author:** [@arflores](https://discourse.slicer.org/u/arflores)\
**Replies:** 1\
**Last updated:** [August 8, 2024, 9:51pm UTC](https://discourse.slicer.org/t/using-log-filter-in-pyradiomics/37772 "2024-08-08T21:51:59Z")

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Hello all, I am trying to use the LoG filter in Pyradiomics. I have been successful with the other filters using the enableImageTypeByName (imageType, enabled=True). But when I use ‘LoG’, I do not get the LoG results, j…

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## [3D Slicer Nighttime Queueing](https://discourse.slicer.org/t/3d-slicer-nighttime-queueing/37455)

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**Author:** [@dstern1](https://discourse.slicer.org/u/dstern1)\
**Replies:** 3\
**Last updated:** [July 18, 2024, 6:38pm UTC](https://discourse.slicer.org/t/3d-slicer-nighttime-queueing/37455 "2024-07-18T18:38:09Z")

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Hello, I am a student intern working with Dr. Alkalay. We are working on a project using already segmented spines and analyzing them using the radiomics function. We are trying to code the software to be able to run thes…

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## [How to normalisation the DICOM data before radiomic processing](https://discourse.slicer.org/t/how-to-normalisation-the-dicom-data-before-radiomic-processing/37362)

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**Author:** [@TS\_FAIKAH\_AWANG](https://discourse.slicer.org/u/TS_FAIKAH_AWANG)\
**Replies:** 0\
**Last updated:** [July 13, 2024, 8:11pm UTC](https://discourse.slicer.org/t/how-to-normalisation-the-dicom-data-before-radiomic-processing/37362 "2024-07-13T20:11:35Z")

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Hi everyone, I’m Faikah and new to 3d slicer. I’m using 3d slicer version 5.61 for segmentation of my DICOM data. I faced a difficulties with how to normalized the data for preprocessing before my segmentation as I could…

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## [Automated PyRadiomics Feature work with DICOM and DICOM RT structure](https://discourse.slicer.org/t/automated-pyradiomics-feature-work-with-dicom-and-dicom-rt-structure/36829)

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**Author:** [@youngchanseo](https://discourse.slicer.org/u/youngchanseo)\
**Replies:** 0\
**Last updated:** [June 17, 2024, 2:35am UTC](https://discourse.slicer.org/t/automated-pyradiomics-feature-work-with-dicom-and-dicom-rt-structure/36829 "2024-06-17T02:35:22Z")

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Hello. I have already installed pyradiomics and Slicer RT via extension manager. In the DICOM RT structure file, there are contour data for regions of interest (ROIs) \[1\]) of the tumor shape. In the DICOM file, I have…

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## [Analyze features extracted from 3d Slicer](https://discourse.slicer.org/t/analyze-features-extracted-from-3d-slicer/36575)

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**Author:** [@Varsha\_Giridharan](https://discourse.slicer.org/u/Varsha_Giridharan)\
**Replies:** 0\
**Last updated:** [June 3, 2024, 3:24pm UTC](https://discourse.slicer.org/t/analyze-features-extracted-from-3d-slicer/36575 "2024-06-03T15:24:12Z")

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Can you please help me to analyze features extracted from 3d slicer after importing MRI scans? I have attached a screen shot in this post. The values in the columns are of different data types so I’m finding it difficult…

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## [Is there recommended parameters for breast mammography in .yaml file?](https://discourse.slicer.org/t/is-there-recommended-parameters-for-breast-mammography-in-yaml-file/36371)

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**Author:** [@Lena](https://discourse.slicer.org/u/Lena)\
**Replies:** 0\
**Last updated:** [May 24, 2024, 11:01am UTC](https://discourse.slicer.org/t/is-there-recommended-parameters-for-breast-mammography-in-yaml-file/36371 "2024-05-24T11:01:18Z")

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I’m a new learner and now working on extracting features from breast mammography (x-ray) using Pyradiomics. I noticed that no recommendation for parameter file is provided in the Pyradiomics website. Is there any recommd…

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## [My understanding of steps for 3D Slicer Radiomics and Deep learning](https://discourse.slicer.org/t/my-understanding-of-steps-for-3d-slicer-radiomics-and-deep-learning/35920)

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**Author:** [@sapos93](https://discourse.slicer.org/u/sapos93)\
**Replies:** 1\
**Last updated:** [May 5, 2024, 12:21pm UTC](https://discourse.slicer.org/t/my-understanding-of-steps-for-3d-slicer-radiomics-and-deep-learning/35920 "2024-05-05T12:21:21Z")

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Dear Users, I am a newbie in the realm of coding. I’m a physician-researcher who wants to do a project of developing a deep learning radiomics signature for a specific spinal anatomical variant. My understanding for the…

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## [How to select best parameter setting? (bin width)](https://discourse.slicer.org/t/how-to-select-best-parameter-setting-bin-width/21877)

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**Author:** [@akshay\_pillai](https://discourse.slicer.org/u/akshay_pillai)\
**Replies:** 2\
**Last updated:** [April 6, 2024, 2:44am UTC](https://discourse.slicer.org/t/how-to-select-best-parameter-setting-bin-width/21877 "2024-04-06T02:44:40Z")

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I am new to pyradiomics. I want to extract feature from a ct scan of lungs. I want to know what the best parameter settings are to extract my feature. Every time I use a different binwidth I get different results. I just…

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## [Pyradiomics doesn't calculate features for all VOIs](https://discourse.slicer.org/t/pyradiomics-doesnt-calculate-features-for-all-vois/34454)

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**Author:** [@Dhartez](https://discourse.slicer.org/u/Dhartez)\
**Replies:** 0\
**Last updated:** [February 21, 2024, 4:08pm UTC](https://discourse.slicer.org/t/pyradiomics-doesnt-calculate-features-for-all-vois/34454 "2024-02-21T16:08:16Z")

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Hi all, I am having a little issue with pyradiomics in Slicer. Briefly, this is to extract features from CNN generated segmentations of two brain structures (bilaterally, so 4 segmentations / VOIs in total) on MRI. Whe…

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## [PyRadiomics. Fillters](https://discourse.slicer.org/t/pyradiomics-fillters/33888)

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**Author:** [@szafanapapcie](https://discourse.slicer.org/u/szafanapapcie)\
**Replies:** 0\
**Last updated:** [January 21, 2024, 1:10am UTC](https://discourse.slicer.org/t/pyradiomics-fillters/33888 "2024-01-21T01:10:21Z")

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Hello, I am writing a program that calculates textural features. I have a question about the use of filters when extracting features. I want to take into account all the filters that are available in the Radiomics libr…

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## [First order feature map ](https://discourse.slicer.org/t/first-order-feature-map/33499)

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**Author:** [@MicheleMureddu](https://discourse.slicer.org/u/MicheleMureddu)\
**Replies:** 0\
**Last updated:** [December 22, 2023, 12:11pm UTC](https://discourse.slicer.org/t/first-order-feature-map/33499 "2023-12-22T12:11:49Z")

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Hi i was trying to extract first order feature maps with this configurations: setting: binWidth: 0.3125 label: 1 interpolator: 'sitkBSpline' resampledPixelSpacing: resegmentMode: 'absolute' resegmentRang…

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## [Location of "SlicerRadiomics" output in 3D Slicer](https://discourse.slicer.org/t/location-of-slicerradiomics-output-in-3d-slicer/20028)

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**Author:** [@Sari\_Khalil](https://discourse.slicer.org/u/Sari_Khalil)\
**Replies:** 4\
**Last updated:** [December 5, 2023, 9:21pm UTC](https://discourse.slicer.org/t/location-of-slicerradiomics-output-in-3d-slicer/20028 "2023-12-05T21:21:26Z")

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I’m a new user of 3D slicer and my goal is to extract radiomic features using the “SlicerRadiomics” extension. I don’t know where the output table for these features is being saved. As you can see in the screenshot, I ha…

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## [Gray Level Co-occurrence Matrix](https://discourse.slicer.org/t/gray-level-co-occurrence-matrix/32673)

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**Author:** [@foursheep](https://discourse.slicer.org/u/foursheep)\
**Replies:** 0\
**Last updated:** [November 8, 2023, 2:09pm UTC](https://discourse.slicer.org/t/gray-level-co-occurrence-matrix/32673 "2023-11-08T14:09:04Z")

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Hi, I am preparing to extract the features of the outer circular region of the ROI. Can I directly input the circular ROI to obtain GLCM Features?

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## [How to do image normalization in Radiomics](https://discourse.slicer.org/t/how-to-do-image-normalization-in-radiomics/12689)

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**Author:** [@danceward](https://discourse.slicer.org/u/danceward)\
**Replies:** 10\
**Last updated:** [November 26, 2023, 1:59am UTC](https://discourse.slicer.org/t/how-to-do-image-normalization-in-radiomics/12689 "2023-11-26T01:59:08Z")

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Hello I am doing some work about texture analysis using Radiomics package and how can I do image normalization before texture analysis? Thanks

[Next page](https://discourse.slicer.org/c/community/radiomics/23.md?page=1)