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attomo

Python package for pulse-echo ultrasound attenuation tomography

https://github.com/naiarako/attomo

Science Score: 44.0%

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    CITATION.cff file
    Found CITATION.cff file
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    .zenodo.json file
    Found .zenodo.json file
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    Scientific vocabulary similarity
    Low similarity (10.5%) to scientific vocabulary
Last synced: 9 months ago · JSON representation ·

Repository

Python package for pulse-echo ultrasound attenuation tomography

Basic Info
  • Host: GitHub
  • Owner: naiarako
  • License: gpl-3.0
  • Language: Python
  • Default Branch: main
  • Homepage:
  • Size: 2.66 MB
Statistics
  • Stars: 8
  • Watchers: 1
  • Forks: 1
  • Open Issues: 0
  • Releases: 3
Created almost 3 years ago · Last pushed about 2 years ago
Metadata Files
Readme License Citation

README.md

attomo

A Python package for tissue attenuation imaging with Pulse-Echo Ultrasound Attenuation Tomography technique. The method and implementation details are carefully described in

[tba].

Please cite this article if you use codes in attomo.

Installation

(1) If required, set up python by installing the latest Miniconda distribution.

(2) All required packages can be installed by creating a new environment for attomo as

conda env create -f environmentattomocpu(gpu).yml

(3) Activate the environment:

conda activate attomo

(4) Set up attomo module (developer mode) by running:

pip install -e .

in this directory.

(5) You are now ready to run the self-explanatory jupyter notebooks! Just type

jupyter-notebook

and select the notebooks (e.g., Attenuation_tomography.ipynb).

Data:

This public version of the code is written to use the ultrasound signals computed from the k-Wave open-source wave propagation simulator. The Matlab script used to generate the necessary data can be found in ./data/ScriptkWavesimulation.m .

Owner

  • Login: naiarako
  • Kind: user

Citation (CITATION.cff) 

cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "Korta Martiartu"
  given-names: "Naiara"
  orcid: "https://orcid.org/0000-0002-7970-7900"
title: "attomo - a tool for pulse-echo ultrasound attenuation tomography"
version: 0.1.3
doi: 10.5281/zenodo.8077298
date-released: 2024-02-19
url: "https://github.com/naiarako/attomo"

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