MRIQC: MRI Quality Control Pipeline¶
Library: MRIQC | Docker Image: nipreps/mriqc
Function¶
Multi-step quality control pipeline. Internally chains brain extraction, spatial normalization, and computation of dozens of image quality metrics (SNR, CNR, EFC, FBER, motion) with visual report generation.
Modality: BIDS-formatted dataset containing T1w, T2w, and/or BOLD fMRI data (NIfTI format).
Typical Use: Automated quality assessment of MRI data before preprocessing.
Key Parameters¶
Key Points¶
Requires BIDS-formatted input. Computes dozens of IQMs (SNR, CNR, EFC, FBER, motion metrics). Generates individual and group-level visual reports.
Inputs¶
| Name | Type | Required | Label | Flag |
|---|---|---|---|---|
bids_dir |
Directory |
Yes | BIDS dataset directory | |
output_dir |
string |
Yes | Output directory | |
analysis_level |
string |
Yes | Analysis level (participant/group) | |
participant_label |
string |
No | Participant label (without sub- prefix) | --participant-label |
modalities |
string |
No | Modalities to process (T1w/T2w/bold) | --modalities |
no_sub |
boolean |
No | Disable submission of quality metrics | --no-sub |
nprocs |
int |
No | Number of processors | --nprocs |
mem_gb |
int |
No | Memory limit (GB) | --mem-gb |
Outputs¶
| Name | Type | Glob Pattern |
|---|---|---|
output_directory |
Directory |
$(inputs.output_dir) |
log |
File |
mriqc.log |
Docker Tags¶
Available versions: latest, experimental, 25.0.0rc0, 24.0.2, 24.0.1, 24.0.0, 24.0.0rc8, 24.0.0rc7, 24.0.0rc6, 24.0.0rc5
and 5 more
Categories¶
- Functional MRI > MRIQC > Pipeline
- Pipelines > MRIQC > Quality Control