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README.md

Build Status CDNJS Version NPM Version Slack


Content

  1. Hello AMI
  2. Features
  3. Usage
  4. Developer corner
  5. Change log
  6. Credits
  7. Citations

Hello AMI

lesson00 Lesson 00: Load
Load DICOM Data and get a nice Series/Stack/Frame structure.
lesson01 Lesson 01: Visualize 3D
Look at the data we loaded in 3D.
lesson00 Lesson 02: Mesh
Add a mesh to the scene.
lesson00 Lesson 03: Visualize 2D
Look at the data in 2D.
lesson00 Lesson 04: Labelmap
Overlays on top of you data.
Lesson 05: TRK
TRK - coming soon.
lesson00 Lesson 06: Volume Rendering
Volume Rendering.
Lesson 07: Lookup tables
Lookup Tables - coming soon.
lesson00 Lesson 08: Custom progress bar
Custom progress bars.

(more) Advanced demos

Volume rendering, 2D viewer, arbitrary reslicing and more examples and advanced demos there!

Features

READY 🔶 IN PROGRESS OR LIMITED SUPPORT ON ROADMAP

Capabilities Volumes Meshes Widgets
2D Visulization Dicom VTK (THREEJS) 🔶 Handle (2D/3D)
3D Visualization NRRD STL (THREEJS) 🔶 Probe (2D/3D)
Volume Rendering Nifti TRK 🔶 Ruler (2D/3D)
Lookup Tables MHD/(Z)RAW FSM 🔶 Orientation (2D/3D)
Label Maps MGH/MGZ CURV 🔶 Angle (2D/3D)
JPEG

Usage

Pre-requisites

  • ES2015 promises support. (consider using polyfills if needed)
  • Load THREEJS your index.html BEFORE AMI.

<script src="https://cdnjs.cloudflare.com/ajax/libs/three.js/r81/three.js"></script>

Yarn

$> yarn add ami.js

Note: you might need to include babel transforms in you build process.

// app.js
import * as AMI form 'ami.js';
window.console.log('Ready to rock!!');

ami.js

Check-out the lessons to get started quickly.

New: Use the new factory not to have to include three in index.html.

import * as THREE from 'three';
import {stackHelperFactory} from 'ami.js';

const StackHelper = stackHelperFactory(THREE);
const stackHelper = new StackHelper();

Add AMI in your index.html after THREEJS.

<!-- index.html -->
<script src="https://cdnjs.cloudflare.com/ajax/libs/three.js/r81/three.js"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/ami.js/0.0.12/ami.min.js"></script>
<script src="app.js"></script>

#app.js
const AMI = AMI;
window.console.log('Ready to rock!!');

Developer corner

Get the source code and related packages.

$> git clone https://github.com/FNNDSC/ami.git
$> cd ami
$> yarn install

To run examples (browserify/babelify/serve the example)

$> yarn example <examples name>

#run the geometries_slice example
$> yarn example geometries_slice

Build standalone library to lib/

$> yarn build:ami

Build minified standalone version run

$> yarn build:ami:prod

Tests

$> yarn test

Documentation

$> yarn doc

Build and deploy dist/ to gh-pages

$> yarn deploy

Find out more about the API.

Change log

Credits

AMI would not exist without them:

THREEJS
  • Base components such as Vectors, Matrices and Objects3D.
  • HTML template for example page.
  • Author(s): mrdoob
DicomParser
  • DICOM parsing relies on it.
  • Author(s): chafey
CornerstoneWADOImageLoader
  • Was used to figure out how to use the dicom parser properly.
  • Author(s): chafey
NIFTI-Reader-JS
  • Nifti parsing relies on it.
  • Author(s): rii-mango
NRRD-JS
  • NRRD parsing relies on it.
  • Author(s): jaspervdg
JPEGLosslessDecoderJS
  • JPEG Lossless Decoder for DICOM images
  • Author(s): rii-mango
Image-JPEG2000
Pako
  • GZ file decompression
  • Author(s): nodeca

Citations

2017

2016

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