> For the complete documentation index, see [llms.txt](https://docs.ccv.brown.edu/bnc-user-manual/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools.md).

# Standalone Tools

- [voxalign: automated MR spectroscopy voxel placement](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/voxalign-automated-mr-spectroscopy-voxel-placement.md)
- [Installation](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/voxalign-automated-mr-spectroscopy-voxel-placement/installation.md): Voxalign runs on a separate computer, not the scanner console
- [Multi-session alignment](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/voxalign-automated-mr-spectroscopy-voxel-placement/multi-session-alignment.md): For exact replication of voxel placement(s) within a single participant across multiple scan sessions
- [Center on MNI coordinate](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/voxalign-automated-mr-spectroscopy-voxel-placement/center-on-mni-coordinate.md)
- [Quantify voxel overlap](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/voxalign-automated-mr-spectroscopy-voxel-placement/quantify-voxel-overlap.md)
- [dicomsort: a tool to organize DICOM files](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/dicomsort-a-tool-to-organize-dicom-files.md): Reading DICOM files exported from the scanner or XNAT is not always intuitive. This script aims to ease confusion by organizing the files in a way that is clear and consistent.
- [ironmap](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/ironmap.md)
- [convert enhanced multi-frame DICOMs to legacy single-frame](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/convert-enhanced-multi-frame-dicoms-to-legacy-single-frame.md)
- [DICOM anonymization](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/dicom-anonymization.md): This script copies a directory of DICOMs, making modifications to the DICOM headers as specified in a configuration .csv file
- [Calculating SNR and TSNR using AFNI](https://docs.ccv.brown.edu/bnc-user-manual/standalone-tools/calculating-snr-and-tsnr-using-afni.md)


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