Man pages for neuroconductor/fMRIscrub
Scrubbing and Other Data Cleaning Routines for fMRI
| artifact_images | Artifact images |
| as.matrix2 | Convert to T by V matrix |
| check_design_matrix | Check design matrix |
| CompCor | Anatomical CompCor |
| CompCor_HCP | Anatomical CompCor for HCP NIFTI and CIFTI data |
| CompCor.noise_comps | CompCor: get noise components |
| Dat1 | First Example Time Series from the ABIDE |
| Dat2 | Second Example Time Series from the ABIDE |
| data_CompCor_Params | fMRI data for 'scrub' and 'CompCor' |
| dct_bases | Cosine bases for the DCT |
| dct_convert | Convert between number of DCT bases and Hz of highpass filter |
| DVARS | DVARS |
| erode_vol | Erode volumetric mask |
| FD | Framewise Displacement |
| fMRIscrub | fMRIscrub: fMRI scrubbing and other data cleaning routines |
| format_data | Format data for pscrub and CompCor |
| fsl_bptf | 'bptf' function from FSL |
| fusedPCA | Fused PCA (C++ core) |
| fusedPCA_check_kwargs | Check fusedPCA args |
| get_NIFTI_ROI_masks | Get NIFTI ROI masks |
| hat_matrix | Hat matrix |
| high_kurtosis | Which components have high kurtosis? |
| is_constant | Is this numeric vector constant? |
| leverage | Leverage |
| Mode | Mode of data vector |
| neighbor_counts | Count each voxel's neighbors with value 'TRUE' |
| noise_Params | noise parameters for CompCor |
| nuisance_regression | Nuisance regression |
| pct_sig | Convert data values to percent signal. |
| plot.scrub_DVARS | Plot a '"scrub_DVARS"' object |
| plot.scrub_FD | Plot a '"scrub_FD"' object |
| plot.scrub_projection | Plot a '"scrub_projection"' object |
| plot.scrub_projection_multi | Plot a '"scrub_projection_multi"' object |
| plot_scrub_wrapper | Plot scrubbing results |
| pscrub | Projection scrubbing |
| pscrub_from_multi | Convert '"pscrub_multi"' to '"pscrub"' |
| pscrub_multi | Compare multiple leverage measures with 'pscrub_multi' |
| pscrub_Params | pscrub |
| read_nifti | Wrapper to common functions for reading NIFTIs |
| rob_scale | Stabilize the center and scale of a timeseries robustly |
| rob_trend | Robust linear model on DCT bases |
| scale_med | Scale data columns robustly |
| scrub | Data-driven scrubbing |
| scrub_plot | '"scrub"' plot sub-function |
| scrub_xifti | Scrub fMRI data in CIFTI format |
| sd_hIQR | Estimate SD robustly using the half IQR |
| summary.scrub_DVARS | Summarize a '"scrub_DVARS"' object |
| summary.scrub_FD | Summarize a '"scrub_FD"' object |
| summary.scrub_projection | Summarize a '"scrub_projection"' object |
| unmask_vol | Undo a volumetric mask |
