Cancer Imaging Research Python Packages

glam-radiomics

Gray Level Affinity Metrics (GLAM)

collageradiomics

Python Implementation of the CoLlAGe radiomics descriptor. CoLlAGe captures subtle anisotropic differences in disease pathologies by measuring entropy of co-occurrences of voxel-level gradient orientations on imaging computed within a local neighborhood.

mediml

Python Open-source package for medical images processing and radiomics features extraction.

foundation-cancer-image-biomarker

[Nature Machine Intelligence 2024] Code and evaluation repository for the paper

depalma-napari-omero

A toolbox to segment and track lung tumor nodules in longitudinal series of mice CT scans.

spatial-lda

Probabilistic topic model for identifying cellular micro-environments.

pysera

PySERA – Open-Source Standardized Python Library for Automated, Scalable, and Reproducible Handcrafted and Deep Radiomics

pyradiomics-fix

Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks. Support: https://discourse.slicer.org/c/community/radiomics

medimage-pkg

Python Open-source package for medical images processing and radiomics features extraction.

lutuflow

A toolbox to segment and track lung tumor nodules in longitudinal series of mice CT scans.

collageradiomicstypes

Python Implementation of the CoLlAGe radiomics descriptor. CoLlAGe captures subtle anisotropic differences in disease pathologies by measuring entropy of co-occurrences of voxel-level gradient orientations on imaging computed within a local neighborhood.

mouselungseg

Lungs segmentation in mice CT scans

pyradiomics-cuda

Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks. Support: https://discourse.slicer.org/c/community/radiomics

pyradiomics-bhklab

Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks. Support: https://discourse.slicer.org/c/community/radiomics

mousetumortrack

Tracking tumor nodules in mice CT scans.

collageradiomics-types

Python Implementation of the CoLlAGe radiomics descriptor. CoLlAGe captures subtle anisotropic differences in disease pathologies by measuring entropy of co-occurrences of voxel-level gradient orientations on imaging computed within a local neighborhood.

topology-radiomics

Python implementation of topology descriptors which capture subtle sharpness and curvature differences along the surface of diseased pathologies on imaging.

collageradiomicscli

Python Implementation of the CoLlAGe radiomics descriptor. CoLlAGe captures subtle anisotropic differences in disease pathologies by measuring entropy of co-occurrences of voxel-level gradient orientations on imaging computed within a local neighborhood.

collageradiomics-core

Python Implementation of the CoLlAGe radiomics descriptor. CoLlAGe captures subtle anisotropic differences in disease pathologies by measuring entropy of co-occurrences of voxel-level gradient orientations on imaging computed within a local neighborhood.