@itk-wasm/elastix NPM

@itk-wasm/elastix

A toolbox for rigid and nonrigid registration of images.

Installation

npm install @itk-wasm/elastix

Usage

Browser interface

Import:

import {
  defaultParameterMap,
  elastix,
  readParameterFiles,
  writeParameterFiles,
  setPipelinesBaseUrl,
  getPipelinesBaseUrl,
  setPipelineWorkerUrl,
  getPipelineWorkerUrl,
} from "@itk-wasm/elastix"

defaultParameterMap

Returns the default elastix parameter map for a given transform type.

async function defaultParameterMap(
  webWorker: null | Worker,
  transformName: string,
  options: DefaultParameterMapOptions = {}
) : Promise<DefaultParameterMapResult>

Parameter	Type	Description
`transformName`	string	Transform name. One of: translation, rigid, affine, bspline, spline, groupwise

DefaultParameterMapOptions interface:

Property	Type	Description
`numberOfResolutions`	number	Number of multiscale registration resolutions.
`finalGridSpacing`	number	Final grid spacing in physical units for bspline transforms.

DefaultParameterMapResult interface:

Property	Type	Description
webWorker	Worker	WebWorker used for computation
`parameterMap`	JsonCompatible	Elastix parameter map representation

elastix

Rigid and non-rigid registration of images.

async function elastix(
  webWorker: null | Worker,
  parameterObject: JsonCompatible,
  transform: string,
  options: ElastixOptions = {}
) : Promise<ElastixResult>

Parameter	Type	Description
`parameterObject`	JsonCompatible	Elastix parameter object representation
`transform`	string	Fixed-to-moving transform file

ElastixOptions interface:

Property	Type	Description
`fixed`	Image	Fixed image
`moving`	Image	Moving image
`initialTransform`	*string	File	BinaryFile*	Initial transform to apply before registration
`initialTransformParameterObject`	JsonCompatible	Initial elastix transform parameter object to apply before registration. Only provide this or an initial transform.

ElastixResult interface:

Property	Type	Description
webWorker	Worker	WebWorker used for computation
`result`	Image	Resampled moving image
`transform`	BinaryFile	Fixed-to-moving transform file
`transformParameterObject`	JsonCompatible	Elastix optimized transform parameter object representation

readParameterFiles

Read elastix parameter text files into a parameter object.

async function readParameterFiles(
  webWorker: null | Worker,
  options: ReadParameterFilesOptions = { parameterFiles: [] as TextFile[] | File[] | string[], }
) : Promise<ReadParameterFilesResult>

Parameter	Type	Description

ReadParameterFilesOptions interface:

Property	Type	Description
`parameterFiles`	*string[]	File[]	TextFile[]*	Elastix parameter files

ReadParameterFilesResult interface:

Property	Type	Description
webWorker	Worker	WebWorker used for computation
`parameterObject`	JsonCompatible	Elastix parameter object representation

writeParameterFiles

Write an elastix parameter text file from a parameter object.

async function writeParameterFiles(
  webWorker: null | Worker,
  parameterObject: JsonCompatible,
  parameterFiles: string[]

) : Promise<WriteParameterFilesResult>

Parameter	Type	Description
`parameterObject`	JsonCompatible	Elastix parameter object representation.
`parameterFiles`	string[]	Elastix parameter files, must have the same length as the number of parameter maps in the parameter object.

WriteParameterFilesResult interface:

Property	Type	Description
webWorker	Worker	WebWorker used for computation
`parameterFiles`	TextFile[]	Elastix parameter files, must have the same length as the number of parameter maps in the parameter object.

setPipelinesBaseUrl

Set base URL for WebAssembly assets when vendored.

function setPipelinesBaseUrl(
  baseUrl: string | URL
) : void

getPipelinesBaseUrl

Get base URL for WebAssembly assets when vendored.

function getPipelinesBaseUrl() : string | URL

setPipelineWorkerUrl

Set base URL for the itk-wasm pipeline worker script when vendored.

function setPipelineWorkerUrl(
  baseUrl: string | URL
) : void

getPipelineWorkerUrl

Get base URL for the itk-wasm pipeline worker script when vendored.

function getPipelineWorkerUrl() : string | URL

Node interface

Import:

import {
  defaultParameterMapNode,
  elastixNode,
  readParameterFilesNode,
  writeParameterFilesNode,
  setPipelinesBaseUrl,
  getPipelinesBaseUrl,
  setPipelineWorkerUrl,
  getPipelineWorkerUrl,
} from "@itk-wasm/elastix"

defaultParameterMapNode

Returns the default elastix parameter map for a given transform type.

async function defaultParameterMapNode(
  transformName: string,
  options: DefaultParameterMapOptions = {}
) : Promise<DefaultParameterMapNodeResult>

Parameter	Type	Description
`transformName`	string	Transform name. One of: translation, rigid, affine, bspline, spline, groupwise

DefaultParameterMapNodeOptions interface:

Property	Type	Description
`numberOfResolutions`	number	Number of multiscale registration resolutions.
`finalGridSpacing`	number	Final grid spacing in physical units for bspline transforms.

DefaultParameterMapNodeResult interface:

Property	Type	Description
`parameterMap`	JsonCompatible	Elastix parameter map representation

elastixNode

Rigid and non-rigid registration of images.

async function elastixNode(
  parameterObject: JsonCompatible,
  transform: string,
  options: ElastixOptions = {}
) : Promise<ElastixNodeResult>

Parameter	Type	Description
`parameterObject`	JsonCompatible	Elastix parameter object representation
`transform`	string	Fixed-to-moving transform file

ElastixNodeOptions interface:

Property	Type	Description
`fixed`	Image	Fixed image
`moving`	Image	Moving image
`initialTransform`	*string	File	BinaryFile*	Initial transform to apply before registration
`initialTransformParameterObject`	JsonCompatible	Initial elastix transform parameter object to apply before registration. Only provide this or an initial transform.

ElastixNodeResult interface:

Property	Type	Description
`result`	Image	Resampled moving image
`transform`	BinaryFile	Fixed-to-moving transform file
`transformParameterObject`	JsonCompatible	Elastix optimized transform parameter object representation

readParameterFilesNode

Read elastix parameter text files into a parameter object.

async function readParameterFilesNode(
  options: ReadParameterFilesOptions = { parameterFiles: [] as string[], }
) : Promise<ReadParameterFilesNodeResult>

Parameter	Type	Description

ReadParameterFilesNodeOptions interface:

Property	Type	Description
`parameterFiles`	*string[]	File[]	TextFile[]*	Elastix parameter files

ReadParameterFilesNodeResult interface:

Property	Type	Description
`parameterObject`	JsonCompatible	Elastix parameter object representation

writeParameterFilesNode

Write an elastix parameter text file from a parameter object.

async function writeParameterFilesNode(
  parameterObject: JsonCompatible,
  parameterFiles: string[]

) : Promise<WriteParameterFilesNodeResult>

Parameter	Type	Description
`parameterObject`	JsonCompatible	Elastix parameter object representation.
`parameterFiles`	string[]	Elastix parameter files, must have the same length as the number of parameter maps in the parameter object.

WriteParameterFilesNodeResult interface:

Property	Type	Description
`parameterFiles`	TextFile[]	Elastix parameter files, must have the same length as the number of parameter maps in the parameter object.

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