README.md
__init__.py
analyzeto4dfp.py
anatomi_cuts_utils.py
annot2std.py
ants_denoise_image_fs.py
ants_n4_bias_field_correction_fs.py
aparc2feat.py
aparc_stats_aseg.py
aparcstats2table.py
aparcstatsdiff.py
apas2aseg.py
apply_morph.py
aseg2feat.py
asegstats2table.py
asegstatsdiff.py
avi2talxfm.py
bblabel.py
bbmask.py
bbregister.py
bedpostx_mgh.py
beta2sxa.py
biasfield.py
bmedits2surf.py
brec.py
browse_minc_header_tcl.py
bugr.py
build_desikan_killiany_gcs_csh.py
cblumwmgyri.py
check_mcr_sh.py
check_recons_sh.py
check_subject.py
compute_interrater_variability_csh.py
compute_label_volumes_csh.py
compute_vox2vox.py
conf2hires.py
connected_components.py
cor_to_minc.py
cp_dicom.py
create_morph.py
csvprint.py
dcmdir_info_mgh.py
dcmdjpeg_fs.py
dcmdrle_fs.py
dcmsplit.py
dcmunpack.py
deface_subject.py
defect2seg.py
defect_seg.py
dicom_rename.py
diffusion_utils.py
dmri_ac_sh.py
dmri_anatomi_cuts.py
dmri_bset.py
dmri_colored_fa.py
dmri_extract_surface_measurements.py
dmri_forrest.py
dmri_group.py
dmri_group_by_endpoints.py
dmri_match.py
dmri_mergepaths.py
dmri_motion.py
dmri_neighboring_regions.py
dmri_paths.py
dmri_pathstats.py
dmri_project_end_points.py
dmri_save_histograms.py
dmri_spline.py
dmri_stats_ac.py
dmri_train.py
dmri_trk2trk.py
dmri_violin_plots.py
dmri_vox2vox.py
dt_recon.py
export_gcam.py
extract_seg_waveform.py
exvivo_hemi_proc.py
feat2segstats.py
feat2surf.py
fiducials_calibration.py
fiducials_correction.py
fix_subject.py
fix_subject_corrected.py
fix_subject_corrected_rh.py
fix_subject_rh.py
fixup_mni_paths.py
flip_4dfp.py
flirt_newdefault_20080811_sch.py
fname2ext.py
fname2stem.py
freeview.py
fs_check_version.py
fs_install_mcr.py
fs_lib_check.py
fs_print_help.py
fs_run_from_mcr.py
fs_spmreg_glnxa64.py
fs_temp_dir.py
fs_temp_file.py
fs_time.py
fs_tutorial_data.py
fs_update.py
fscalc.py
fsdcmdecompress.py
fsl_5_0_2_xyztrans_sch.py
fsl_label2voxel.py
fsl_rigid_register.py
fsl_sub_mgh.py
fslregister.py
fspalm.py
fsr_coreg.py
fsr_getxopts.py
fsr_import.py
fsrealpath.py
fsvglrun.py
fvcompare.py
gauss_4dfp.py
gca_apply.py
gcainit.py
gcaprepone.py
gcatrain.py
gcatrainskull.py
gdcmconv_fs.py
gems_compute_atlas_probs.py
get_label_thickness.py
getfullpath.py
grad_unwarp.py
groupstats.py
groupstatsdiff.py
gtmseg.py
hiam_make_surfaces.py
hiam_make_template.py
hiam_register.py
histo_compute_joint_density.py
histo_register_block.py
histo_synthesize.py
ico_supersample.py
ifh2hdr.py
imgreg_4dfp.py
inflate_subject.py
inflate_subject3.py
inflate_subject_lh.py
inflate_subject_new.py
inflate_subject_new_lh.py
inflate_subject_new_rh.py
inflate_subject_rh.py
inflate_subject_sc.py
irepifitvol.py
irepifitvol_glnx64.py
is_lta.py
is_surface.py
isanalyze.py
isnifti.py
isolate_labels_csh.py
isolate_labels_keeporigval_csh.py
jkgcatrain.py
label2flat.py
label2patch.py
label_elderly_subject.py
label_subject.py
label_subject_flash.py
label_subject_mixed.py
labels_disjoint.py
labels_intersect.py
labels_union.py
list_otl_labels.py
listsubj.py
long_create_base_sigma.py
long_create_orig.py
long_mris_slopes.py
long_qdec_table.py
long_stats_combine.py
long_stats_slopes.py
long_stats_tps.py
long_submit_jobs.py
long_submit_postproc.py
longmc.py
lpcregister.py
lta_convert.py
lta_diff.py
make_average_subcort.py
make_average_subject.py
make_average_surface.py
make_average_volume.py
make_cortex_label.py
make_exvivo_filled.py
make_folding_atlas.py
make_hemi_mask.py
make_segvol_table.py
make_symmetric.py
make_upright.py
makevol.py
map_all_labels.py
map_all_labels_lh.py
map_central_sulcus.py
map_to_base.py
meanval.py
merge_stats_tables.py
mergeseg.py
mideface.py
minc2seqinfo.py
mkheadsurf.py
mkima_index_tcl.py
mkmnc_index_tcl.py
mksubjdirs.py
mksurfatlas.py
mkxsubjreg.py
mmppsp.py
mni152reg.py
morph_only_subject.py
morph_only_subject_lh.py
morph_only_subject_rh.py
morph_rgb_lh.py
morph_rgb_rh.py
morph_subject.py
morph_subject_lh.py
morph_subject_rh.py
morph_tables_lh.py
morph_tables_rh.py
mpr2mni305.py
mri_3d_photo_recon.py
mri_add_new_tp.py
mri_add_xform_to_header.py
mri_align_long_csh.py
mri_and.py
mri_annotation2label.py
mri_aparc2aseg.py
mri_aparc2wmseg.py
mri_apply_bias.py
mri_average.py
mri_binarize.py
mri_brain_volume.py
mri_brainvol_stats.py
mri_ca_label.py
mri_ca_normalize.py
mri_ca_register.py
mri_ca_tissue_parms.py
mri_ca_train.py
mri_cal_renormalize_gca.py
mri_cc.py
mri_cnr.py
mri_compile_edits.py
mri_compute_bias.py
mri_compute_change_map.py
mri_compute_distances.py
mri_compute_layer_fractions.py
mri_compute_overlap.py
mri_compute_seg_overlap.py
mri_compute_volume_fractions.py
mri_compute_volume_intensities.py
mri_concat.py
mri_concatenate_gcam.py
mri_concatenate_lta.py
mri_convert.py
mri_copy_params.py
mri_copy_values.py
mri_cor2label.py
mri_coreg.py
mri_correct_segmentations.py
mri_create_t2combined.py
mri_create_tests.py
mri_cvs_check.py
mri_cvs_data_copy.py
mri_cvs_register.py
mri_dct_align.py
mri_dct_align_binary.py
mri_deface.py
mri_defacer.py
mri_diff.py
mri_dist_surf_label.py
mri_distance_transform.py
mri_easyreg.py
mri_easywarp.py
mri_edit_segmentation.py
mri_edit_segmentation_with_surfaces.py
mri_edit_wm_with_aseg.py
mri_em_register.py
mri_entowm_seg.py
mri_evaluate_morph.py
mri_extract.py
mri_extract_fcd_features.py
mri_extract_label.py
mri_extract_largest_cc.py
mri_exvivo_norm.py
mri_exvivo_strip.py
mri_fdr.py
mri_fieldsign.py
mri_fill.py
mri_fit_bias.py
mri_fslmat_to_lta.py
mri_func2sph.py
mri_funcvits.py
mri_fuse_intensity_images.py
mri_fuse_segmentations.py
mri_fwhm.py
mri_gca_ambiguous.py
mri_gcab_train.py
mri_gcut.py
mri_gdfglm.py
mri_glmfit.py
mri_glmfit_sim.py
mri_gradient_info.py
mri_gradunwarp.py
mri_gtmpvc.py
mri_gtmseg.py
mri_hausdorff_dist.py
mri_head.py
mri_hires_register.py
mri_histo_eq.py
mri_info.py
mri_jacobian.py
mri_joint_density.py
mri_label2label.py
mri_label2vol.py
mri_label_histo.py
mri_label_vals.py
mri_label_volume.py
mri_linear_align.py
mri_linear_align_binary.py
mri_linear_register.py
mri_log_likelihood.py
mri_long_normalize.py
mri_make_bem_surfaces.py
mri_make_uchar.py
mri_map_cpdat.py
mri_maps2csd.py
mri_mark_temporal_lobe.py
mri_mask.py
mri_matrix_multiply.py
mri_mc.py
mri_mcsim.py
mri_mergelabels.py
mri_mi.py
mri_modify.py
mri_morphology.py
mri_motion_correct.py
mri_motion_correct2.py
mri_ms_fitparms.py
mri_nl_align.py
mri_nl_align_binary.py
mri_nlfilter.py
mri_normalize.py
mri_normalize_tp2.py
mri_nu_correct_mni.py
mri_or.py
mri_paint.py
mri_parse_sdcmdir.py
mri_path2label.py
mri_polv.py
mri_pretess.py
mri_probe_ima.py
mri_probedicom.py
mri_reduce.py
mri_refine_seg.py
mri_relabel_hypointensities.py
mri_relabel_nonwm_hypos.py
mri_remove_neck.py
mri_reorient_lr_csh.py
mri_rf_label.py
mri_rf_long_label.py
mri_rf_long_train.py
mri_rf_train.py
mri_ribbon.py
mri_rigid_register.py
mri_robust_register.py
mri_robust_template.py
mri_sbbr.py
mri_sclimbic_seg.py
mri_seg_diff.py
mri_seg_overlap.py
mri_segcentroids.py
mri_seghead.py
mri_segment.py
mri_segment_hypothalamic_subunits.py
mri_segment_thalamic_nuclei_dti_cnn.py
mri_segreg.py
mri_segstats.py
mri_sph2surf.py
mri_stats2seg.py
mri_stopmask.py
mri_strip_nonwhite.py
mri_strip_subject_info.py
mri_surf2surf.py
mri_surf2vol.py
mri_surf2volseg.py
mri_surfacemask.py
mri_surfcluster.py
mri_synthesize.py
mri_synthmorph.py
mri_synthseg.py
mri_synthsr.py
mri_synthsr_hyperfine.py
mri_synthstrip.py
mri_tessellate.py
mri_threshold.py
mri_topologycorrection.py
mri_train.py
mri_transform.py
mri_twoclass.py
mri_validate_skull_stripped.py
mri_vessel_segment.py
mri_vol2label.py
mri_vol2surf.py
mri_vol2vol.py
mri_volcluster.py
mri_voldiff.py
mri_volsynth.py
mri_warp_convert.py
mri_watershed.py
mri_wbc.py
mri_xvolavg.py
mri_z2p.py
mris2rgb.py
mris_aa_shrinkwrap.py
mris_add_template.py
mris_anatomical_stats.py
mris_annot_diff.py
mris_annot_to_segmentation.py
mris_apply_reg.py
mris_autodet_gwstats.py
mris_average_curvature.py
mris_ba_segment.py
mris_ca_deform.py
mris_ca_label.py
mris_ca_train.py
mris_calc.py
mris_compute_acorr.py
mris_compute_layer_intensities.py
mris_compute_lgi.py
mris_compute_overlap.py
mris_compute_parc_overlap.py
mris_compute_volume_fractions.py
mris_congeal.py
mris_convert.py
mris_copy_header.py
mris_curvature.py
mris_curvature2image.py
mris_curvature_stats.py
mris_defects_pointset.py
mris_deform.py
mris_diff.py
mris_distance_map.py
mris_distance_to_label.py
mris_distance_transform.py
mris_divide_parcellation.py
mris_entropy.py
mris_errors.py
mris_estimate_wm.py
mris_euler_number.py
mris_expand.py
mris_extract_main_component.py
mris_extract_patches.py
mris_extract_values.py
mris_exvivo_surfaces.py
mris_fill.py
mris_find_flat_regions.py
mris_fix_topology.py
mris_flatten.py
mris_fwhm.py
mris_gradient.py
mris_hausdorff_dist.py
mris_image2vtk.py
mris_inflate.py
mris_info.py
mris_init_global_tractography.py
mris_intensity_profile.py
mris_interpolate_warp.py
mris_jacobian.py
mris_label2annot.py
mris_label_area.py
mris_label_calc.py
mris_label_mode.py
mris_left_right_register.py
mris_make_average_surface.py
mris_make_face_parcellation.py
mris_make_surfaces.py
mris_make_template.py
mris_map_cuts.py
mris_mef_surfaces.py
mris_merge_parcellations.py
mris_mesh_subdivide.py
mris_morph_stats.py
mris_ms_refine.py
mris_multimodal.py
mris_multimodal_surface_placement.py
mris_multiscale_stats.py
mris_niters2fwhm.py
mris_nudge.py
mris_parcellate_connectivity.py
mris_place_surface.py
mris_pmake.py
mris_preproc.py
mris_profile_clustering.py
mris_refine_surfaces.py
mris_register.py
mris_register_label_map.py
mris_register_to_label.py
mris_register_to_volume.py
mris_remesh.py
mris_remove_intersection.py
mris_remove_negative_vertices.py
mris_remove_variance.py
mris_reposition_surface.py
mris_resample.py
mris_rescale.py
mris_reverse.py
mris_rf_label.py
mris_rf_train.py
mris_rotate.py
mris_sample_label.py
mris_sample_parc.py
mris_seg2annot.py
mris_segment.py
mris_segment_vals.py
mris_segmentation_stats.py
mris_shrinkwrap.py
mris_simulate_atrophy.py
mris_skeletonize.py
mris_smooth.py
mris_smooth_intracortical.py
mris_sphere.py
mris_spherical_average.py
mris_surf2vtk.py
mris_surface_stats.py
mris_surface_to_vol_distances.py
mris_talairach.py
mris_target_pos.py
mris_thickness.py
mris_thickness_comparison.py
mris_thickness_diff.py
mris_topo_fixer.py
mris_transform.py
mris_translate_annotation.py
mris_transmantle_dysplasia_paths.py
mris_volmask.py
mris_volmask_novtk.py
mris_volmask_vtk.py
mris_volsmooth.py
mris_volume.py
mris_warp.py
mris_watershed.py
mris_wm_volume.py
mrisp_paint.py
mrisp_write.py
ms_refine_subject.py
nmovie_qt.py
oct_register_mosaic.py
optseq2.py
orient_las.py
parc_atlas_jackknife_test.py
pctsurfcon.py
plot_structure_stats_tcl.py
pointset2label.py
polyorder.py
post_recon_all.py
predict_v1_sh.py
print_unique_labels_csh.py
py.typed
pyproject.toml
qatools_py.py
quantify_brainstem_structures_sh.py
quantify_h_asubregions_sh.py
quantify_thalamic_nuclei_sh.py
rbbr.py
rca_base_init.py
rca_config.py
rca_config2csh.py
rca_fix_ento.py
rca_long_tp_init.py
rcbf_prep.py
recon_all.py
recon_all_clinical_sh.py
recon_all_exvivo.py
reconbatchjobs.py
reg2subject.py
reg_feat2anat.py
reg_mni305_2mm.py
regdat2xfm.py
register_child.py
register_csh.py
register_elderly_subject.py
register_subject.py
register_subject_flash.py
reinflate_subject.py
reinflate_subject_lh.py
reinflate_subject_rh.py
remove_talairach.py
renormalize_subject_keep_editting.py
renormalize_t1_subject.py
reregister_subject_mixed.py
rtview.py
run_mris_preproc.py
run_qdec_glm.py
run_samseg.py
run_samseg_long.py
run_segment_subfields_t1_longitudinal_sh.py
run_segment_subject_sh.py
run_segment_subject_t1_auto_estimate_alveus_ml_sh.py
run_segment_subject_t1_t2_auto_estimate_alveus_ml_sh.py
run_segment_subject_t2_auto_estimate_alveus_ml_sh.py
run_segment_thalamic_nuclei_sh.py
samseg.py
samseg2recon.py
samseg_long.py
samsegmesh2surf.py
sbtiv.py
seg2filled.py
seg2recon.py
segment_bs_sh.py
segment_ha_t1_long_sh.py
segment_ha_t1_sh.py
segment_ha_t2_sh.py
segment_monkey.py
segment_subfields_t1_longitudinal.py
segment_subject.py
segment_subject_notal.py
segment_subject_notal2.py
segment_subject_old_skull_strip.py
segment_subject_sc.py
segment_subject_t1_auto_estimate_alveus_ml.py
segment_subject_t1_t2_auto_estimate_alveus_ml.py
segment_subject_t2_auto_estimate_alveus_ml.py
segment_subregions.py
segment_thalamic_nuclei.py
segment_thalamic_nuclei_sh.py
segpons.py
setlabelstat.py
sfa2fieldsign.py
slicedelay.py
sphere_subject.py
sphere_subject_lh.py
sphere_subject_rh.py
spline3_test.py
spm_t_to_b.py
spmregister.py
sratio.py
stat_normalize.py
stattablediff.py
stem2fname.py
surf2vol.py
surfreg.py
swi_preprocess.py
swi_process.py
t4img_4dfp.py
t4imgs_4dfp.py
table2map.py
tal_compare.py
tal_qc_azs.py
talairach.py
talairach2.py
talairach_afd.py
talairach_avi.py
talairach_mgh.py
talsegprob.py
test_orientation_planes_from_parcellation.py
test_recon_all_csh.py
test_tutorials_sh.py
thickdiffmap.py
tkmedit.py
tkmeditfv.py
tkregister2.py
tkregister2_cmdl.py
tkregisterfv.py
tksurfer.py
tksurferfv.py
trac_all.py
trac_paths.py
trac_preproc.py
tractstats2table.py
train_gcs_atlas.py
tridec.py
trk_tools.py
unpack_ima1_tcl.py
unpack_ima_tcl.py
unpack_mnc_tcl.py
unpackimadir.py
unpackimadir2.py
unpackmincdir.py
unpacksdcmdir.py
update_needed.py
v_3dvolreg_afni.py
v_4dfptoanalyze.py
ventfix.py
vertexvol.py
vno_match_check.py
vol2segavg.py
vol2subfield.py
vol2symsurf.py
vsm_smooth.py
wfilemask.py
wm_anat_snr.py
wmedits2surf.py
wmsaseg.py
xcerebralseg.py
xcorr.py
xfmrot.py
xhemi_tal.py
xhemireg.py
xsanatreg.py
zero_lt_4dfp.py
./__init__.py
./analyzeto4dfp.py
./anatomi_cuts_utils.py
./annot2std.py
./ants_denoise_image_fs.py
./ants_n4_bias_field_correction_fs.py
./aparc2feat.py
./aparc_stats_aseg.py
./aparcstats2table.py
./aparcstatsdiff.py
./apas2aseg.py
./apply_morph.py
./aseg2feat.py
./asegstats2table.py
./asegstatsdiff.py
./avi2talxfm.py
./bblabel.py
./bbmask.py
./bbregister.py
./bedpostx_mgh.py
./beta2sxa.py
./biasfield.py
./bmedits2surf.py
./brec.py
./browse_minc_header_tcl.py
./bugr.py
./build_desikan_killiany_gcs_csh.py
./cblumwmgyri.py
./check_mcr_sh.py
./check_recons_sh.py
./check_subject.py
./compute_interrater_variability_csh.py
./compute_label_volumes_csh.py
./compute_vox2vox.py
./conf2hires.py
./connected_components.py
./cor_to_minc.py
./cp_dicom.py
./create_morph.py
./csvprint.py
./dcmdir_info_mgh.py
./dcmdjpeg_fs.py
./dcmdrle_fs.py
./dcmsplit.py
./dcmunpack.py
./deface_subject.py
./defect2seg.py
./defect_seg.py
./dicom_rename.py
./diffusion_utils.py
./dmri_ac_sh.py
./dmri_anatomi_cuts.py
./dmri_bset.py
./dmri_colored_fa.py
./dmri_extract_surface_measurements.py
./dmri_forrest.py
./dmri_group.py
./dmri_group_by_endpoints.py
./dmri_match.py
./dmri_mergepaths.py
./dmri_motion.py
./dmri_neighboring_regions.py
./dmri_paths.py
./dmri_pathstats.py
./dmri_project_end_points.py
./dmri_save_histograms.py
./dmri_spline.py
./dmri_stats_ac.py
./dmri_train.py
./dmri_trk2trk.py
./dmri_violin_plots.py
./dmri_vox2vox.py
./dt_recon.py
./export_gcam.py
./extract_seg_waveform.py
./exvivo_hemi_proc.py
./feat2segstats.py
./feat2surf.py
./fiducials_calibration.py
./fiducials_correction.py
./fix_subject.py
./fix_subject_corrected.py
./fix_subject_corrected_rh.py
./fix_subject_rh.py
./fixup_mni_paths.py
./flip_4dfp.py
./flirt_newdefault_20080811_sch.py
./fname2ext.py
./fname2stem.py
./freeview.py
./fs_check_version.py
./fs_install_mcr.py
./fs_lib_check.py
./fs_print_help.py
./fs_run_from_mcr.py
./fs_spmreg_glnxa64.py
./fs_temp_dir.py
./fs_temp_file.py
./fs_time.py
./fs_tutorial_data.py
./fs_update.py
./fscalc.py
./fsdcmdecompress.py
./fsl_5_0_2_xyztrans_sch.py
./fsl_label2voxel.py
./fsl_rigid_register.py
./fsl_sub_mgh.py
./fslregister.py
./fspalm.py
./fsr_coreg.py
./fsr_getxopts.py
./fsr_import.py
./fsrealpath.py
./fsvglrun.py
./fvcompare.py
./gauss_4dfp.py
./gca_apply.py
./gcainit.py
./gcaprepone.py
./gcatrain.py
./gcatrainskull.py
./gdcmconv_fs.py
./gems_compute_atlas_probs.py
./get_label_thickness.py
./getfullpath.py
./grad_unwarp.py
./groupstats.py
./groupstatsdiff.py
./gtmseg.py
./hiam_make_surfaces.py
./hiam_make_template.py
./hiam_register.py
./histo_compute_joint_density.py
./histo_register_block.py
./histo_synthesize.py
./ico_supersample.py
./ifh2hdr.py
./imgreg_4dfp.py
./inflate_subject.py
./inflate_subject3.py
./inflate_subject_lh.py
./inflate_subject_new.py
./inflate_subject_new_lh.py
./inflate_subject_new_rh.py
./inflate_subject_rh.py
./inflate_subject_sc.py
./irepifitvol.py
./irepifitvol_glnx64.py
./is_lta.py
./is_surface.py
./isanalyze.py
./isnifti.py
./isolate_labels_csh.py
./isolate_labels_keeporigval_csh.py
./jkgcatrain.py
./label2flat.py
./label2patch.py
./label_elderly_subject.py
./label_subject.py
./label_subject_flash.py
./label_subject_mixed.py
./labels_disjoint.py
./labels_intersect.py
./labels_union.py
./list_otl_labels.py
./listsubj.py
./long_create_base_sigma.py
./long_create_orig.py
./long_mris_slopes.py
./long_qdec_table.py
./long_stats_combine.py
./long_stats_slopes.py
./long_stats_tps.py
./long_submit_jobs.py
./long_submit_postproc.py
./longmc.py
./lpcregister.py
./lta_convert.py
./lta_diff.py
./make_average_subcort.py
./make_average_subject.py
./make_average_surface.py
./make_average_volume.py
./make_cortex_label.py
./make_exvivo_filled.py
./make_folding_atlas.py
./make_hemi_mask.py
./make_segvol_table.py
./make_symmetric.py
./make_upright.py
./makevol.py
./map_all_labels.py
./map_all_labels_lh.py
./map_central_sulcus.py
./map_to_base.py
./meanval.py
./merge_stats_tables.py
./mergeseg.py
./mideface.py
./minc2seqinfo.py
./mkheadsurf.py
./mkima_index_tcl.py
./mkmnc_index_tcl.py
./mksubjdirs.py
./mksurfatlas.py
./mkxsubjreg.py
./mmppsp.py
./mni152reg.py
./morph_only_subject.py
./morph_only_subject_lh.py
./morph_only_subject_rh.py
./morph_rgb_lh.py
./morph_rgb_rh.py
./morph_subject.py
./morph_subject_lh.py
./morph_subject_rh.py
./morph_tables_lh.py
./morph_tables_rh.py
./mpr2mni305.py
./mri_3d_photo_recon.py
./mri_add_new_tp.py
./mri_add_xform_to_header.py
./mri_align_long_csh.py
./mri_and.py
./mri_annotation2label.py
./mri_aparc2aseg.py
./mri_aparc2wmseg.py
./mri_apply_bias.py
./mri_average.py
./mri_binarize.py
./mri_brain_volume.py
./mri_brainvol_stats.py
./mri_ca_label.py
./mri_ca_normalize.py
./mri_ca_register.py
./mri_ca_tissue_parms.py
./mri_ca_train.py
./mri_cal_renormalize_gca.py
./mri_cc.py
./mri_cnr.py
./mri_compile_edits.py
./mri_compute_bias.py
./mri_compute_change_map.py
./mri_compute_distances.py
./mri_compute_layer_fractions.py
./mri_compute_overlap.py
./mri_compute_seg_overlap.py
./mri_compute_volume_fractions.py
./mri_compute_volume_intensities.py
./mri_concat.py
./mri_concatenate_gcam.py
./mri_concatenate_lta.py
./mri_convert.py
./mri_copy_params.py
./mri_copy_values.py
./mri_cor2label.py
./mri_coreg.py
./mri_correct_segmentations.py
./mri_create_t2combined.py
./mri_create_tests.py
./mri_cvs_check.py
./mri_cvs_data_copy.py
./mri_cvs_register.py
./mri_dct_align.py
./mri_dct_align_binary.py
./mri_deface.py
./mri_defacer.py
./mri_diff.py
./mri_dist_surf_label.py
./mri_distance_transform.py
./mri_easyreg.py
./mri_easywarp.py
./mri_edit_segmentation.py
./mri_edit_segmentation_with_surfaces.py
./mri_edit_wm_with_aseg.py
./mri_em_register.py
./mri_entowm_seg.py
./mri_evaluate_morph.py
./mri_extract.py
./mri_extract_fcd_features.py
./mri_extract_label.py
./mri_extract_largest_cc.py
./mri_exvivo_norm.py
./mri_exvivo_strip.py
./mri_fdr.py
./mri_fieldsign.py
./mri_fill.py
./mri_fit_bias.py
./mri_fslmat_to_lta.py
./mri_func2sph.py
./mri_funcvits.py
./mri_fuse_intensity_images.py
./mri_fuse_segmentations.py
./mri_fwhm.py
./mri_gca_ambiguous.py
./mri_gcab_train.py
./mri_gcut.py
./mri_gdfglm.py
./mri_glmfit.py
./mri_glmfit_sim.py
./mri_gradient_info.py
./mri_gradunwarp.py
./mri_gtmpvc.py
./mri_gtmseg.py
./mri_hausdorff_dist.py
./mri_head.py
./mri_hires_register.py
./mri_histo_eq.py
./mri_info.py
./mri_jacobian.py
./mri_joint_density.py
./mri_label2label.py
./mri_label2vol.py
./mri_label_histo.py
./mri_label_vals.py
./mri_label_volume.py
./mri_linear_align.py
./mri_linear_align_binary.py
./mri_linear_register.py
./mri_log_likelihood.py
./mri_long_normalize.py
./mri_make_bem_surfaces.py
./mri_make_uchar.py
./mri_map_cpdat.py
./mri_maps2csd.py
./mri_mark_temporal_lobe.py
./mri_mask.py
./mri_matrix_multiply.py
./mri_mc.py
./mri_mcsim.py
./mri_mergelabels.py
./mri_mi.py
./mri_modify.py
./mri_morphology.py
./mri_motion_correct.py
./mri_motion_correct2.py
./mri_ms_fitparms.py
./mri_nl_align.py
./mri_nl_align_binary.py
./mri_nlfilter.py
./mri_normalize.py
./mri_normalize_tp2.py
./mri_nu_correct_mni.py
./mri_or.py
./mri_paint.py
./mri_parse_sdcmdir.py
./mri_path2label.py
./mri_polv.py
./mri_pretess.py
./mri_probe_ima.py
./mri_probedicom.py
./mri_reduce.py
./mri_refine_seg.py
./mri_relabel_hypointensities.py
./mri_relabel_nonwm_hypos.py
./mri_remove_neck.py
./mri_reorient_lr_csh.py
./mri_rf_label.py
./mri_rf_long_label.py
./mri_rf_long_train.py
./mri_rf_train.py
./mri_ribbon.py
./mri_rigid_register.py
./mri_robust_register.py
./mri_robust_template.py
./mri_sbbr.py
./mri_sclimbic_seg.py
./mri_seg_diff.py
./mri_seg_overlap.py
./mri_segcentroids.py
./mri_seghead.py
./mri_segment.py
./mri_segment_hypothalamic_subunits.py
./mri_segment_thalamic_nuclei_dti_cnn.py
./mri_segreg.py
./mri_segstats.py
./mri_sph2surf.py
./mri_stats2seg.py
./mri_stopmask.py
./mri_strip_nonwhite.py
./mri_strip_subject_info.py
./mri_surf2surf.py
./mri_surf2vol.py
./mri_surf2volseg.py
./mri_surfacemask.py
./mri_surfcluster.py
./mri_synthesize.py
./mri_synthmorph.py
./mri_synthseg.py
./mri_synthsr.py
./mri_synthsr_hyperfine.py
./mri_synthstrip.py
./mri_tessellate.py
./mri_threshold.py
./mri_topologycorrection.py
./mri_train.py
./mri_transform.py
./mri_twoclass.py
./mri_validate_skull_stripped.py
./mri_vessel_segment.py
./mri_vol2label.py
./mri_vol2surf.py
./mri_vol2vol.py
./mri_volcluster.py
./mri_voldiff.py
./mri_volsynth.py
./mri_warp_convert.py
./mri_watershed.py
./mri_wbc.py
./mri_xvolavg.py
./mri_z2p.py
./mris2rgb.py
./mris_aa_shrinkwrap.py
./mris_add_template.py
./mris_anatomical_stats.py
./mris_annot_diff.py
./mris_annot_to_segmentation.py
./mris_apply_reg.py
./mris_autodet_gwstats.py
./mris_average_curvature.py
./mris_ba_segment.py
./mris_ca_deform.py
./mris_ca_label.py
./mris_ca_train.py
./mris_calc.py
./mris_compute_acorr.py
./mris_compute_layer_intensities.py
./mris_compute_lgi.py
./mris_compute_overlap.py
./mris_compute_parc_overlap.py
./mris_compute_volume_fractions.py
./mris_congeal.py
./mris_convert.py
./mris_copy_header.py
./mris_curvature.py
./mris_curvature2image.py
./mris_curvature_stats.py
./mris_defects_pointset.py
./mris_deform.py
./mris_diff.py
./mris_distance_map.py
./mris_distance_to_label.py
./mris_distance_transform.py
./mris_divide_parcellation.py
./mris_entropy.py
./mris_errors.py
./mris_estimate_wm.py
./mris_euler_number.py
./mris_expand.py
./mris_extract_main_component.py
./mris_extract_patches.py
./mris_extract_values.py
./mris_exvivo_surfaces.py
./mris_fill.py
./mris_find_flat_regions.py
./mris_fix_topology.py
./mris_flatten.py
./mris_fwhm.py
./mris_gradient.py
./mris_hausdorff_dist.py
./mris_image2vtk.py
./mris_inflate.py
./mris_info.py
./mris_init_global_tractography.py
./mris_intensity_profile.py
./mris_interpolate_warp.py
./mris_jacobian.py
./mris_label2annot.py
./mris_label_area.py
./mris_label_calc.py
./mris_label_mode.py
./mris_left_right_register.py
./mris_make_average_surface.py
./mris_make_face_parcellation.py
./mris_make_surfaces.py
./mris_make_template.py
./mris_map_cuts.py
./mris_mef_surfaces.py
./mris_merge_parcellations.py
./mris_mesh_subdivide.py
./mris_morph_stats.py
./mris_ms_refine.py
./mris_multimodal.py
./mris_multimodal_surface_placement.py
./mris_multiscale_stats.py
./mris_niters2fwhm.py
./mris_nudge.py
./mris_parcellate_connectivity.py
./mris_place_surface.py
./mris_pmake.py
./mris_preproc.py
./mris_profile_clustering.py
./mris_refine_surfaces.py
./mris_register.py
./mris_register_label_map.py
./mris_register_to_label.py
./mris_register_to_volume.py
./mris_remesh.py
./mris_remove_intersection.py
./mris_remove_negative_vertices.py
./mris_remove_variance.py
./mris_reposition_surface.py
./mris_resample.py
./mris_rescale.py
./mris_reverse.py
./mris_rf_label.py
./mris_rf_train.py
./mris_rotate.py
./mris_sample_label.py
./mris_sample_parc.py
./mris_seg2annot.py
./mris_segment.py
./mris_segment_vals.py
./mris_segmentation_stats.py
./mris_shrinkwrap.py
./mris_simulate_atrophy.py
./mris_skeletonize.py
./mris_smooth.py
./mris_smooth_intracortical.py
./mris_sphere.py
./mris_spherical_average.py
./mris_surf2vtk.py
./mris_surface_stats.py
./mris_surface_to_vol_distances.py
./mris_talairach.py
./mris_target_pos.py
./mris_thickness.py
./mris_thickness_comparison.py
./mris_thickness_diff.py
./mris_topo_fixer.py
./mris_transform.py
./mris_translate_annotation.py
./mris_transmantle_dysplasia_paths.py
./mris_volmask.py
./mris_volmask_novtk.py
./mris_volmask_vtk.py
./mris_volsmooth.py
./mris_volume.py
./mris_warp.py
./mris_watershed.py
./mris_wm_volume.py
./mrisp_paint.py
./mrisp_write.py
./ms_refine_subject.py
./nmovie_qt.py
./oct_register_mosaic.py
./optseq2.py
./orient_las.py
./parc_atlas_jackknife_test.py
./pctsurfcon.py
./plot_structure_stats_tcl.py
./pointset2label.py
./polyorder.py
./post_recon_all.py
./predict_v1_sh.py
./print_unique_labels_csh.py
./py.typed
./qatools_py.py
./quantify_brainstem_structures_sh.py
./quantify_h_asubregions_sh.py
./quantify_thalamic_nuclei_sh.py
./rbbr.py
./rca_base_init.py
./rca_config.py
./rca_config2csh.py
./rca_fix_ento.py
./rca_long_tp_init.py
./rcbf_prep.py
./recon_all.py
./recon_all_clinical_sh.py
./recon_all_exvivo.py
./reconbatchjobs.py
./reg2subject.py
./reg_feat2anat.py
./reg_mni305_2mm.py
./regdat2xfm.py
./register_child.py
./register_csh.py
./register_elderly_subject.py
./register_subject.py
./register_subject_flash.py
./reinflate_subject.py
./reinflate_subject_lh.py
./reinflate_subject_rh.py
./remove_talairach.py
./renormalize_subject_keep_editting.py
./renormalize_t1_subject.py
./reregister_subject_mixed.py
./rtview.py
./run_mris_preproc.py
./run_qdec_glm.py
./run_samseg.py
./run_samseg_long.py
./run_segment_subfields_t1_longitudinal_sh.py
./run_segment_subject_sh.py
./run_segment_subject_t1_auto_estimate_alveus_ml_sh.py
./run_segment_subject_t1_t2_auto_estimate_alveus_ml_sh.py
./run_segment_subject_t2_auto_estimate_alveus_ml_sh.py
./run_segment_thalamic_nuclei_sh.py
./samseg.py
./samseg2recon.py
./samseg_long.py
./samsegmesh2surf.py
./sbtiv.py
./seg2filled.py
./seg2recon.py
./segment_bs_sh.py
./segment_ha_t1_long_sh.py
./segment_ha_t1_sh.py
./segment_ha_t2_sh.py
./segment_monkey.py
./segment_subfields_t1_longitudinal.py
./segment_subject.py
./segment_subject_notal.py
./segment_subject_notal2.py
./segment_subject_old_skull_strip.py
./segment_subject_sc.py
./segment_subject_t1_auto_estimate_alveus_ml.py
./segment_subject_t1_t2_auto_estimate_alveus_ml.py
./segment_subject_t2_auto_estimate_alveus_ml.py
./segment_subregions.py
./segment_thalamic_nuclei.py
./segment_thalamic_nuclei_sh.py
./segpons.py
./setlabelstat.py
./sfa2fieldsign.py
./slicedelay.py
./sphere_subject.py
./sphere_subject_lh.py
./sphere_subject_rh.py
./spline3_test.py
./spm_t_to_b.py
./spmregister.py
./sratio.py
./stat_normalize.py
./stattablediff.py
./stem2fname.py
./surf2vol.py
./surfreg.py
./swi_preprocess.py
./swi_process.py
./t4img_4dfp.py
./t4imgs_4dfp.py
./table2map.py
./tal_compare.py
./tal_qc_azs.py
./talairach.py
./talairach2.py
./talairach_afd.py
./talairach_avi.py
./talairach_mgh.py
./talsegprob.py
./test_orientation_planes_from_parcellation.py
./test_recon_all_csh.py
./test_tutorials_sh.py
./thickdiffmap.py
./tkmedit.py
./tkmeditfv.py
./tkregister2.py
./tkregister2_cmdl.py
./tkregisterfv.py
./tksurfer.py
./tksurferfv.py
./trac_all.py
./trac_paths.py
./trac_preproc.py
./tractstats2table.py
./train_gcs_atlas.py
./tridec.py
./trk_tools.py
./unpack_ima1_tcl.py
./unpack_ima_tcl.py
./unpack_mnc_tcl.py
./unpackimadir.py
./unpackimadir2.py
./unpackmincdir.py
./unpacksdcmdir.py
./update_needed.py
./v_3dvolreg_afni.py
./v_4dfptoanalyze.py
./ventfix.py
./vertexvol.py
./vno_match_check.py
./vol2segavg.py
./vol2subfield.py
./vol2symsurf.py
./vsm_smooth.py
./wfilemask.py
./wm_anat_snr.py
./wmedits2surf.py
./wmsaseg.py
./xcerebralseg.py
./xcorr.py
./xfmrot.py
./xhemi_tal.py
./xhemireg.py
./xsanatreg.py
./zero_lt_4dfp.py
niwrap_freesurfer.egg-info/PKG-INFO
niwrap_freesurfer.egg-info/SOURCES.txt
niwrap_freesurfer.egg-info/dependency_links.txt
niwrap_freesurfer.egg-info/requires.txt
niwrap_freesurfer.egg-info/top_level.txt