Module: nifti

Classes

FILE

Methods

(static) load_untouch0_nii_hdr(machine, data) → {Object}

Loads the header of a NIfTI file.

This function initializes a FILE object to read the binary data of a NIfTI header. It then extracts the header information and returns it. This function does not read anything regarding the transformation.

Parameters:

Name	Type	Description
`machine`	'ieee-le' \| 'ieee-be'	Byte order used by the machine ('ieee-le' for little-endian, 'ieee-be' for big-endian).
`data`	ArrayBuffer	The binary data of the NIfTI file.

Source: src/utils/Nifti_viewer/load_untouch0_nii_hdr.js, line 24
See: For function that load transformation information: load_untouch_nii_hdr

Returns:

The parsed NIfTI header object.

Type:: Object

(static) load_untouch_nii(filename, data, img_idxopt, dim5_idxopt, dim6_idxopt, dim7_idxopt, old_RGBopt, slice_idxopt) → {Object}

Load a NIfTI or ANALYZE dataset without applying affine transformations or voxel intensity scaling. This function preserves the original NIfTI header and data untouched.

Parameters:

Name	Type	Attributes	Default	Description
`filename`	string			The NIfTI or ANALYZE file name (with extension).
`data`	ArrayBuffer			The raw content of the file.
`img_idx`	Array.<number>	<optional>	[]	A numerical array of image volume indices. Only the specified volumes will be loaded. Default is to load all available volumes.
`dim5_idx`	Array.<number>	<optional>	[]	A numerical array of 5th dimension indices. Default is to load all available slices.
`dim6_idx`	Array.<number>	<optional>	[]	A numerical array of 6th dimension indices. Default is to load all available slices.
`dim7_idx`	Array.<number>	<optional>	[]	A numerical array of 7th dimension indices. Default is to load all available slices.
`old_RGB`	0 \| 1	<optional>	0	A flag to handle old RGB format. Set to 1 if the image uses the old RGB format (Analyze 6.0), otherwise set to 0 (default).
`slice_idx`	Array.<number>	<optional>	[]	A numerical array of image slice indices. Default is to load all available slices.

Source: src/utils/Nifti_viewer/load_untouch_nifti.js, line 107

Returns:

nii - The NIfTI object containing the header and image data.

Type:: Object

(static) load_untouch_nii_hdr(machine, data) → {Object}

Loads the header of a NIfTI file.

This function initializes a FILE object to read the binary data of a NIfTI header. It then extracts the header information and returns it. If the magic field in the header is not 'n+1' or 'ni1', qform_code and sform_code are set to 0.

Parameters:

Name	Type	Description
`machine`	'ieee-le' \| 'ieee-be'	Byte order used by the machine ('ieee-le' for little-endian, 'ieee-be' for big-endian).
`data`	ArrayBuffer	The binary data of the NIfTI file.

Source: src/utils/Nifti_viewer/load_untouch_nii_hdr.js, line 24
See: For function that does not load transformation information: load_untouch0_nii_hdr

Returns:

The parsed NIfTI header object.

Type:: Object

(static) nifti_anatomical_convention(nii) → {Object}

Automatically flips NIFTI image data to have the right side on the right. Only works on 3D black-and-white NIfTI images. It does not work on colored images, images with imaginary numbers, or 4D images.

Parameters:

Name Type Description

nii

Object

NIFTI file data loaded using load_nifti.js or load_untouch_nifti.js.

Properties

Name	Type	Description
`hdr`	Object	Struct containing NIFTI header fields.
`img`	Array	3D matrix representing the NIFTI image data.

Source: src/utils/Nifti_viewer/nifti_anatomical_conversion.js, line 57

Returns:

The modified NIFTI object with flipped header and data.

Type:: Object

Example

const flippedNii = open_nii_anatomical_convention(nii);