Index

A

ants_applytopoints() (in module fmriproc.transform) ants_applytrafo() (in module fmriproc.transform)

ants_registration() (in module fmriproc.transform) aparc_mask() (fmriproc.roi.ROI method) average_iterations() (fmriproc.prf.FormatTimeCourses class method)

B

baseline_from_dm() (in module fmriproc.prf)

batch_sr_function() (fmriproc.prf.SizeResponse method) bin_fov() (in module fmriproc.image)

C

clip_image() (in module fmriproc.image) CollectSubject (class in fmriproc.prf) correct_angle() (in module fmriproc.planning) create_circular_mask() (in module fmriproc.prf) create_dm() (fmriproc.prf.Profile1D class method) create_line_from_slice() (in module fmriproc.image)

create_line_prf_matrix() (in module fmriproc.prf) create_model_rf_wrapper() (in module fmriproc.prf) create_ribbon_from_beam() (in module fmriproc.image) create_stim_library() (in module fmriproc.prf) ctx2tkr() (in module fmriproc.transform) ctx2vert() (in module fmriproc.transform)

D

DateTimeEncoder (class in fmriproc.roi) default() (fmriproc.roi.DateTimeEncoder method) define_grid_bounds() (fmriproc.prf.ExtendedModel method) define_hrf() (fmriproc.prf.pRFmodelFitting method)

define_mr_parameters() (in module fmriproc.image) define_settings() (fmriproc.prf.pRFmodelFitting method) deg2pix() (in module fmriproc.prf) distance_centers() (in module fmriproc.prf)

E

ExtendedModel (class in fmriproc.prf) extract_data() (fmriproc.roi.ExtractFromROIs static method) extract_run_identifier() (fmriproc.roi.ExtractFromROIs method)

extract_single_subject() (fmriproc.roi.ExtractSubjects method) extract_subjects() (fmriproc.roi.ExtractSubjects method) ExtractFromROIs (class in fmriproc.roi) ExtractSubjects (class in fmriproc.roi)

F

fetch_bounds() (fmriproc.prf.pRFmodelFitting method) fetch_optimizer_info() (fmriproc.prf.pRFmodelFitting method) find_crossings() (fmriproc.prf.Profile1D class method) find_feat_files() (fmriproc.roi.ExtractSubjects static method) find_fmriprep_files() (fmriproc.roi.ExtractSubjects static method) find_most_similar_prf() (in module fmriproc.prf) find_pref_size() (fmriproc.prf.SizeResponse method) find_pybest_files() (fmriproc.roi.ExtractSubjects static method) find_stim_sizes() (fmriproc.prf.SizeResponse method) fit() (fmriproc.prf.pRFmodelFitting method) fix_hrf_parameters() (fmriproc.prf.pRFmodelFitting method) fmriproc.image module fmriproc.planning module

fmriproc.prf module fmriproc.roi module fmriproc.scanner module fmriproc.transform module format_hemi_data() (fmriproc.prf.FormatTimeCourses class method) format_onsets() (in module fmriproc.roi) FormatTimeCourses (class in fmriproc.prf) fs2rawavg() (in module fmriproc.transform) fs2tkr() (in module fmriproc.transform) fs2vert() (in module fmriproc.transform) FullExtractionPipeline (class in fmriproc.roi)

G

gauss_1d_function() (in module fmriproc.prf) GaussianModel (class in fmriproc.prf) generate_model_params() (in module fmriproc.prf) generate_plot() (fmriproc.roi.FullExtractionPipeline method) generate_plot2() (fmriproc.roi.FullExtractionPipeline method) get() (fmriproc.prf.VertexInfo method) get_all_coords() (fmriproc.scanner.Scanner method) get_console_settings() (in module fmriproc.planning) get_fs_coord() (fmriproc.scanner.Scanner method) get_isocenter() (in module fmriproc.image) get_max_coordinate() (in module fmriproc.image) get_max_parameter_shape() (fmriproc.prf.pRFmodelFitting method)

get_minmax() (in module fmriproc.image) get_onset_idx() (in module fmriproc.prf) get_prfdesign() (in module fmriproc.prf) get_ras2vox() (in module fmriproc.transform) get_rois() (fmriproc.roi.ROI method) get_ses1_coord() (fmriproc.scanner.Scanner method) get_ses2_coord() (fmriproc.scanner.Scanner method) get_tkrreg() (in module fmriproc.transform) get_verts() (fmriproc.prf.FormatTimeCourses method) get_vox2ras() (in module fmriproc.transform) get_vox2ras_tkr() (in module fmriproc.transform) gridfit() (fmriproc.prf.ExtendedModel method) (fmriproc.prf.GaussianModel method)

I

iterfit() (fmriproc.prf.ExtendedModel method) (fmriproc.prf.GaussianModel method)

L

layers2line() (in module fmriproc.image)

load_file() (fmriproc.roi.ExtractFromROIs static method) load_params() (fmriproc.prf.pRFmodelFitting method)

M

main_extractor() (fmriproc.roi.ExtractFromROIs method) make_predictions() (fmriproc.prf.pRFmodelFitting method) make_prf() (in module fmriproc.prf) make_roi_mask() (fmriproc.roi.ROI method) make_sr_function() (fmriproc.prf.SizeResponse method) make_stims() (in module fmriproc.prf) make_stims2() (in module fmriproc.prf) make_stimuli() (fmriproc.prf.SizeResponse method) massp_mask_img() (in module fmriproc.image) massp_to_table() (in module fmriproc.image)

merge_masks() (fmriproc.roi.ROI method) mgz2nii() (in module fmriproc.image) module fmriproc.image fmriproc.planning fmriproc.prf fmriproc.roi fmriproc.scanner fmriproc.transform mri_surf2surf() (in module fmriproc.transform)

N

native_to_scanner() (in module fmriproc.transform) nii2mgz() (in module fmriproc.image) norm_1d_sr_function() (in module fmriproc.prf)

norm_2d_sr_function() (in module fmriproc.prf) normal2angle() (in module fmriproc.planning) normalize_prf() (in module fmriproc.prf)

P

Parameters (class in fmriproc.prf) pix2deg() (in module fmriproc.prf) plot_dm() (fmriproc.prf.Profile1D method) plot_stim_size() (fmriproc.prf.SizeResponse method) plot_stims() (in module fmriproc.prf)

plot_vox() (fmriproc.prf.pRFmodelFitting method) prf_neighbouring_vertices() (in module fmriproc.prf) pRFmodelFitting (class in fmriproc.prf) print_to_console() (fmriproc.scanner.Scanner method) Profile1D (class in fmriproc.prf)

R

radius() (in module fmriproc.prf) ras2las() (in module fmriproc.transform) ras2lpi() (in module fmriproc.transform) ras2lps() (in module fmriproc.transform) rawavg2fs() (in module fmriproc.transform) rawavg2lowres() (in module fmriproc.transform) read_aparc() (fmriproc.roi.ROI method) read_par_file() (in module fmriproc.prf) read_roi_list() (fmriproc.roi.ROI method)

read_tcs_file() (fmriproc.roi.ExtractSubjects method) reorient_img() (in module fmriproc.image) resample2d() (in module fmriproc.prf) return_data() (fmriproc.prf.FormatTimeCourses method) return_mask() (fmriproc.roi.ROI method) return_prf_params() (fmriproc.prf.CollectSubject method) return_target_vertex() (fmriproc.prf.CollectSubject method) ROI (class in fmriproc.roi) rotate_normal() (in module fmriproc.planning) run_fitter() (fmriproc.roi.FullExtractionPipeline method)

S

save_params() (fmriproc.prf.pRFmodelFitting method) save_target_params() (fmriproc.prf.SizeResponse method) Scanner (class in fmriproc.scanner) search_for_files() (fmriproc.roi.ExtractSubjects method) select_stims() (in module fmriproc.prf) set_rois_input() (fmriproc.roi.ExtractFromROIs method) set_subjects() (fmriproc.roi.ExtractSubjects method)

single_hemi_line_pycortex() (in module fmriproc.planning) SizeResponse (class in fmriproc.prf) slice_timings() (in module fmriproc.image) slice_timings_to_json() (in module fmriproc.image) sort_dataframe() (fmriproc.roi.FullExtractionPipeline method) sort_rois() (fmriproc.roi.FullExtractionPipeline method) surf_mask() (fmriproc.roi.ROI method)

T

target_prediction_prf() (fmriproc.prf.CollectSubject method) tissue2line() (in module fmriproc.image) tkr2ctx() (in module fmriproc.transform) tkr2fs() (in module fmriproc.transform) tkr2rawavg() (in module fmriproc.transform)

to_array() (fmriproc.prf.Parameters method) to_df() (fmriproc.prf.Parameters method) to_ras() (fmriproc.scanner.Scanner static method) to_vox() (fmriproc.scanner.Scanner static method) tsnr() (in module fmriproc.image)

U

unitwise_bounds() (fmriproc.prf.pRFmodelFitting method)

update_settings() (fmriproc.prf.pRFmodelFitting method)

V

vert2coord() (in module fmriproc.transform)

VertexInfo (class in fmriproc.prf)

W

warp_normals() (fmriproc.scanner.Scanner method) write_csv_files() (fmriproc.roi.FullExtractionPipeline method) write_nifti() (fmriproc.scanner.Scanner static method)

write_pymp2rage_json() (in module fmriproc.image) write_pymp2rage_nifti() (in module fmriproc.image) write_settings() (fmriproc.roi.FullExtractionPipeline method)