medviz

MedViz is a Python package for medical image visualization. It provides a set of functions for visualizing medical images and masks. The package is built on top of the matplotlib and nibabel packages.

Installation

To install the package, use pip:

pip install medviz

Usage

To use the package, import it in your Python code:

import medviz

medviz.layered_plot(image_path="dataset/1-1.nii", mask_paths=["dataset/small_bowel.nii", "dataset/1-1-label.nii"], mask_colors=["red", "yellow"], title="Layered Plot")

The layered_plot function creates a layered plot of an image and one or more masks. The masks are overlaid on top of the image using the specified colors. The resulting plot can be used to visualize the location of structures or regions of interest in the image.

import medviz

medviz.gif(
    image_path="dataset/1-1.nii",
    mask_paths=[
        "dataset/small_bowel.nii",
        "dataset/1-1-label.nii",
        "dataset/vertebrae_L3.nii.gz",
        "dataset/vertebrae_L4.nii.gz",
        "dataset/vertebrae_L5.nii.gz",
    ],
    mask_colors=["red", "yellow", "green", "blue", "purple"],
    title="Expert Annotations",
    interval=70,
    start_slice=30,
    end_slice=130,
    save_path="animation.gif",
)

The gif function creates an animated GIF of an image and one or more masks. The masks are overlaid on top of the image using the specified colors. The resulting GIF can be used to visualize the location of structures or regions of interest in the image.

GitHub repository: [https://github.com/mohsenhariri/medviz](https://github.com/mohsenhariri/medviz)

Metadata

Release files for medviz 1.2.0

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for medviz 1.2.0
File	Size	Uploaded
medviz-1.2.0.tar.gz	46.5 kB	Mar 26, 2024	Details

Built distribution (wheel)

Table of built distributions (wheels) for medviz 1.2.0
File	Interpreter	ABI	Platform	Reset
medviz-1.2.0-py3-none-any.whl 56.5 kB Mar 26, 2024	Python 3	none	any	Details

Total release size: 103.0 kB

Release files / medviz-1.2.0.tar.gz

Download URL	medviz-1.2.0.tar.gz
Size	46.5 kB
Tags	Source
SHA-256 checksum How to use checksums	`57a6c140e2d2c95585a93f5b2043429faaae7d6a93e6400f3b800c198a7257ed`
BLAKE2b-256 checksum How to use checksums	`02946560bb3f5d98b5841a907804b92fc3cd76ed0045f1b21243b804bc6cc14d`
Upload date	Mar 26, 2024
Uploaded using Trusted Publishing? What is trusted publishing?	No
Uploaded via	`twine/5.0.0 CPython/3.11.2`

Release files / medviz-1.2.0-py3-none-any.whl

Download URL	medviz-1.2.0-py3-none-any.whl
Size	56.5 kB
Tags	Python 3
SHA-256 checksum How to use checksums	`2e0e9742c6e6d9321bb7d8a1146e99e09dc027b21bfeacfe3f6662cff2f4187a`
BLAKE2b-256 checksum How to use checksums	`6ebbf19bd2be9bf70357f2da2dbd699ed7bba02574f0e2087f645531e630401e`
Upload date	Mar 26, 2024
Uploaded using Trusted Publishing? What is trusted publishing?	No
Uploaded via	`twine/5.0.0 CPython/3.11.2`