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Tools

This page is meant to be a dynamic collection of various QC tools that are available, with a brief summary of their purpose, usage, outputs and the technology they are based on.

If you don't see your own tool or a tool that you think should belong here, please send a pull request (PR) with the changes needed, or open an issue at the niQC repo. Thank you for your contribution.

Table of Contents

  1. Multimodal
  2. Anatomical MRI
  3. Functional MRI
  4. Diffusion MRI
  5. ASL
  6. Scanner/Hardware
  7. Miscellaneous

Multimodal

Tool/resource Modalities Interaction Technology Outputs
MRIQC T1w, fMRI Interactive & Automated Python Plots, reports, IQMs
VisualQC Various modalities: T1wMRI, fMRI, DWI, Quantitative MR Interactive Python Plots, reports

Anatomical (T1w MRI etc)

Tool Purpose Interaction Technology Outputs
MRIQC Identify outliers, Annotate, Extract Image Quality Metrics (IQMs), Quality Prediction Interactive & Automated Python Plots, reports, IQMs, automated rating
MindControl Identify outliers, Annotate, Review anatomical accuracy, Edit and correct voxels Interactive Python, Javascript
braindr T1w or other 2D slices, segmentation Interactive JavaScript Plots, reports
PALS Checks orientation of stroke T1w MRI + lesion mask inputs, performs lesion correction, calculates lesion load, and automatically outputs QC pages Interactive Python QC pages, reports
Qoala-T Quality rating of FreeSurfer segmentation Batch Processing R, FreeSurfer Qoala-T ratings (0-100), plot + csv file
VisualQC Detect and rate artefacts, Accuracy of volumetric or suface segmentations, check alignment Interactive Pure Python Plots, reports

Functional MRI

Tool Purpose Interaction Technology Outputs
dashQC Visualize distributions of quality metrics, check outliers and alignment Interactive JavaScript Plots, reports
MRIQC Identify outliers, Annotate, Extract Image Quality Metrics (IQMs) Interactive & Automated Python Plots, reports, IQMs
pyfMRIqc Calculates various Image Quality Metrics (IQMs) Batch-processing Python Plots, reports, IQMs
rtQC Various aspects of QC for real-time fMRI Interactive Matlab, SPM12 Plots, reports, regressors for denoising
VisualQC Detect and rate artefacts, Accuracy of volumetric or suface segmentations, check alignment Interactive Pure python Plots, reports

Diffusion MRI

Tool Purpose Interaction Technology Outputs
DTIprep QC Batch processing C++
eddyqc QC batch processing C (FSL) JSON, PDF
ExploreDTI - sign up required, free for academic research Visualization and quality assessment Interactive Matlab TBA
VisualQC Detect and rate various artefacts, check alignment Interactive Plots, reports

Arterial Spin Labeling

Tool Purpose Interaction Technology Outputs
ExploreASL image processing and statistics of ASL Batch processing Matlab/SPM TBA

Scanner and Hardware QC

Tool Purpose Interaction Technology Outputs
UniQC Unified QC of MRI sequence development and fMRI artefacts Interactive Matlab/SPM Plots, interactive Matlab Image objects

Miscellaneous

Tool Purpose Interaction Technology Outputs
braindr T1w or other 2D slices, segmentation Interactive JavaScript Plots, reports
MRIQC Web-API Crowdsource Image Quality Metrics (IQMs) Automated Database IQMs & Expert quality annotations
ReproStim Auto-collect audio/video stimuli as presented to participant Automated Magewell USB Capture Plus device audio/video recording (BIDS)