MGZ Viewer

A file-based tool to load MGZ neuroimaging data, extract metadata and slices, and prepare exports for analysis workflows.

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About This Tool

The MGZ Viewer loads MGZ neuroimaging data to expose essential properties needed for validation and analysis. It parses MGZ headers to report dimensions, voxel spacing, data type, and data range, enabling quick quality checks. The tool supports optional slice indexing to reference a single plane and export formats for downstream workflows. Core value lies in providing deterministic access to neuroimaging geometry without rendering full images, reducing processing time for batch QC and pipeline integration. Use cases include cross-subject QC, voxel geometry comparison, and pre-export checks before conversion to alternative formats. The tool distinguishes itself by preserving MGZ metadata fidelity, offering optional exports to NIfTI or slice-based PNGs, and returning precise statistical metadata that informs downstream analyses.

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How to Use

Provide the MGZ file as input (mgz_file).
Optionally specify a slice_index to target a particular plane and select export_formats if needed.
Run to generate metadata, geometry, and export artifacts.
Review the computed metadata and download exports as required.
Use the exported data to feed MRI analysis pipelines or quality-control checks.

Frequently Asked Questions

Find Quick Answers

What is an MGZ file and when is this tool used?

MGZ is a binary volume format used by FreeSurfer to store neuroimaging data. This tool reads MGZ headers, extracts geometry and value ranges, and provides optional exports to common formats for downstream analysis. It is used during data validation, subject-level QC, and pipeline preparation.

What outputs can I expect after processing an MGZ file?

The tool returns dimensions, voxel sizes, data type, data range, orientation, and slice counts. It also provides export options (e.g., NIfTI or PNG slices) with size and location information for each artifact generated.

Can MGZ be exported to NIfTI format?

Yes, with caveats. The tool can provide a minimal NIfTI header translation to accompany the MGZ data, preserving spatial orientation mappings (e.g., RAS). Some metadata may require validation in downstream software.

What if the MGZ file is corrupted or unsupported?

If the header is invalid or the file uses an unsupported MGZ variant, the tool reports specific errors and diagnostics to guide data repair or alternative processing paths. It will not produce exports in such cases.

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