Intelligent Imaging Tools and Tasks (I2T2)
Library of useful tools for Medical Imaging Handling
Instructions for installation and usage examples can be found below.
Install
It's highly recommended you install I2T2 and its dependencies in a virtual environment (conda or others), so that you don't interfere with system-wide python packages.
- Installing via github download:
git clone https://github.com/UCSF-intelligent-imaging/I2T2/
cd I2T2
conda create -n I2T2 python=3.7
conda activate I2T2
pip install nbdev jupyter
pip install -e .
conda install -c conda-forge gdcm
- Installing via pip (latest stable version)
conda create -n I2T2 python=3.7
conda activate I2T2
pip install nbdev jupyter
pip install I2T2
conda install -c conda-forge gdcm
Test your installation
conda activate I2T2
python
>>> import I2T2
NOTE:
I2T2 uses GDCM to uncompress some DICOMs.
Make sure to have GDCM installed in your conda environment via conda install -c conda-forge gdcm
conda activate I2T2
python
>>> import gdcm
Using I2T2
# example usage:
from I2T2.io import *
import matplotlib.pyplot as plt
data_path = '../data/knee/'
try:
array = load_dcm(path_to_dicom_dir = data_path, sort_by_slice_location=True)
plt.imshow(array[:,:,0])
plt.show()
except:
print('could not load array')
1 maintainer
Release files for I2T2 0.1.7
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| I2T2-0.1.7.tar.gz | 12.4 MB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| I2T2-0.1.7-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 38.0 MB
Release files / I2T2-0.1.7.tar.gz
| Download URL | I2T2-0.1.7.tar.gz |
|---|---|
| Size | 12.4 MB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
7f3e4dae1bd2e60a3c0811397f0edcaba5cfc5b6da73bfcc5a356981157feb22
|
|
BLAKE2b-256 checksum How to use checksums |
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|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/3.1.1 pkginfo/1.5.0.1 requests/2.23.0 setuptools/46.1.3.post20200325 requests-toolbelt/0.9.1 tqdm/4.46.0 CPython/3.7.6
|
Release files / I2T2-0.1.7-py3-none-any.whl
| Download URL | I2T2-0.1.7-py3-none-any.whl |
|---|---|
| Size | 25.5 MB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
a7ecfae9cbb1ebdbd4ded594da79bcdf471eae49dfc9f0b01aed1af1f1fe2e03
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BLAKE2b-256 checksum How to use checksums |
b4e347e244e4ff34983250295ceeba2a5131a31daca1d5fc7a37770731bba1cd
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/3.1.1 pkginfo/1.5.0.1 requests/2.23.0 setuptools/46.1.3.post20200325 requests-toolbelt/0.9.1 tqdm/4.46.0 CPython/3.7.6
|
