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Use when processing or analyzing Magnetic Resonance Spectroscopy (MRS) data with FSL MRS. Covers spectral fitting, basis set generation, preprocessing, quantification, and quality control of 1H-MRS an
Use with AI
Install the MCP server or CLI to instantly fetch FSL MRS documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/fsl
Use when preprocessing fMRI data with fMRIPrep. Covers BIDS-compliant preprocessing pipelines, fieldmap correction, ICA-AROMA denoising, confound extraction, surface and volume output spaces, FreeSurf
1 shared topic • 1 shared operation
Giotto Suite — comprehensive R framework for spatial multi-omics analysis supporting 20+ spatial technologies (Visium, MERFISH, Xenium, CosMx, Slide-seq, seqFISH, CODEX, Stereo-seq). Technology-agnost
1 shared topic • 1 shared operation
ilastik — interactive machine learning toolkit for bioimage analysis. Provides pixel classification, object classification, autocontext, tracking, counting, carving (3D segmentation), and multicut bou
1 shared topic • 1 shared operation
Use when assessing MRI image quality, extracting Image Quality Metrics (IQMs), running quality control on BIDS neuroimaging datasets, or generating QC reports for T1w, T2w, or BOLD fMRI data. Covers M
1 shared topic • 1 shared operation
Use when analyzing plant images for phenotyping with PlantCV. Handles visible (RGB), near-infrared (NIR), fluorescence, thermal, and hyperspectral imaging workflows. Performs image segmentation, shape
1 shared topic • 1 shared operation