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| * Brik2Bfloat brik2bfloat * MincToBshort minc_to_bshort * MkXsubjReg mkxsubjreg * MriAddXformToHeader mri_add_xform_to_header * MriAnnotation2Label mri_annotation2label * MriAverage mri_average * MriCaLabel mri_ca_label * MriCaNormalize mri_ca_normalize * MriCaRegister mri_ca_register * MriCaTrain mri_ca_train * MriConvert mri_convert * MriConvertMdh mri_convert_mdh * MriCor2Label mri_cor2label * MriEmRegister mri_em_register * MriFill mri_fill * MriGdfGlm mri_gdfglm * MriHead mri_head * MriInfo mri_info * MriLabel2Label mri_label2label * MriLabelVolume mri_label_volume * MriLinearRegister mri_linear_register * MriMakeRegister mri_make_register * MriMakeTemplate mri_make_template * MriMatrixMultiple mri_matrix_multiply * MriMsFitParms mri_ms_fitparms * MriNormalize mri_normalize * MriParseSdcmDir mri_parse_sdcmdir * MriPartialRibbon mri_partial_ribbon * MriProbdeDicom mri_probedicom * MriProbeIma mri_probe_ima * MriRegister mri_register * MriRelabelHypointensities mri_relabel_hypointensities * MriRigidRegister mri_rigid_register * MriSegHead mri_seghead * MriSegment mri_segment * MriStripSkull mri_strip_skull * MriSurf2Surf mri_surf2surf * MriSurf2Vol mri_surf2vol * MriSurfCluster mri_surfcluster * MriTessellate mri_tessellate * MriVol2Roi mri_vol2roi * MriVol2Surf mri_vol2surf * MriVolCluster mri_volcluster * MriVolSynth mri_volsynth * MriWmFilter mri_wmfilter * MriWatershed mri_watershed * MriXvolAvg mri_xvolavg * Mris2Rgb mris2rgb * MrisAnatomicalStats mris_anatomical_stats * MrisAverageCurvature mris_average_curvature * MrisCaLabel mris_ca_label * MrisCaTrain mris_ca_train * MrisConvert mris_convert * MrisCurvature mris_curvature * MrisEulerNumber mris_euler_number * MrisFindFlatRegions mris_find_flat_regions * MrisFixTopology mris_fix_topology * MrisFlatten mris_flatten * MrisGlm mris_glm * MrisInflate mris_inflate * MrisMakeAvergeSurface mris_make_average_surface * MrisMakeSurfaces mris_make_surfaces * MrisMakeTemplate mris_make_template * MrisRegister mris_register * MrisSmooth mris_smooth * MrisSphere mris_sphere * MrisSphericalAverage mris_spherical_average * MrisThickness mris_thickness * MrisTwoClass mris_twoclass * MrispPaint mrisp_paint * MriSynthesize mri_synthesize * NMovie nmovie * OptSeq2 optseq2 * Paint paint * Spm2Bfloat spm2bfloat * StatCombine statcombine * StatNormalize stat_normalize * VssDump vss-dump |
#pragma section-numbers on [[Include(Blank, "Recon-all", 4)]] * ["recon-all"] * Commands, in chronological order: * ["mri_convert"] * ["mri_motion_correct.fsl"] * ["mri_nu_correct.mni"] * ["talairach"] * ["mri_normalize"] * ["mri_watershed"] * ["mri_em_register"] * ["mri_ca_normalize"] * ["mri_ca_register"] * ["mri_remove_neck"] * ["mri_ca_label"] * ["mri_segstats"] * ["mri_mask"] * ["mri_segment"] * ["mri_edit_wm_with_aseg"] * ["mri_pretess"] * ["mri_fill"] * ["mri_tessellate"] * ["mris_smooth"] * ["mris_inflate"] * ["mris_sphere"] * ["mris_fix_topology"] * ["mris_make_surfaces"] * ["mris_surf2vol"] * ["mris_register"] * ["mrisp_paint"] * ["mris_ca_label"] * ["mris_anatomical_stats"] * ["mri_aparc2aseg"] [[Include(Blank, "Volume", 4)]] [[Include(FreeSurferCommandsVolumeConversion, , 5)]] [[Include(FreeSurferCommandsMotionCorrection, , 5)]] [[Include(FreeSurferCommandsTalairach, ,5)]] [[Include(FreeSurferCommandsRegistration, ,5)]] [[Include(FreeSurferCommandsIntensityNormalization, ,5)]] [[Include(FreeSurferCommandsSkullStripping, ,5)]] [[Include(FreeSurferCommandsSegmentation, ,5)]] [[Include(FreeSurferCommandsVolumeMisc, ,5)]] [[Include(Blank, "Surface", 4)]] [[Include(FreeSurferCommandsSurfaceGeneration, ,5)]] [[Include(FreeSurferCommandsSurfaceSmoothing, ,5)]] [[Include(FreeSurferCommandsSurfaceInflation, ,5)]] [[Include(FreeSurferCommandsTopologyFixing, ,5)]] [[Include(FreeSurferCommandsInterSubjectMorphing, ,5)]] [[Include(FreeSurferCommandsFinalSurfaceGeneration, ,5)]] [[Include(FreeSurferCommandsSurfaceParcellation, ,5)]] [[Include(FreeSurferCommandsFlattening, ,5)]] [[Include(FreeSurferCommandsSurfaceMisc, ,5)]] |
Include(Blank, "Recon-all", 4)
- ["recon-all"]
- Commands, in chronological order:
- ["mri_convert"]
- ["mri_motion_correct.fsl"]
- ["mri_nu_correct.mni"]
- ["talairach"]
- ["mri_normalize"]
- ["mri_watershed"]
- ["mri_em_register"]
- ["mri_ca_normalize"]
- ["mri_ca_register"]
- ["mri_remove_neck"]
- ["mri_ca_label"]
- ["mri_segstats"]
- ["mri_mask"]
- ["mri_segment"]
- ["mri_edit_wm_with_aseg"]
- ["mri_pretess"]
- ["mri_fill"]
- ["mri_tessellate"]
- ["mris_smooth"]
- ["mris_inflate"]
- ["mris_sphere"]
- ["mris_fix_topology"]
- ["mris_make_surfaces"]
- ["mris_surf2vol"]
- ["mris_register"]
- ["mrisp_paint"]
- ["mris_ca_label"]
- ["mris_anatomical_stats"]
- ["mri_aparc2aseg"]
Include(FreeSurferCommandsVolumeConversion, , 5) Include(FreeSurferCommandsMotionCorrection, , 5) Include(FreeSurferCommandsTalairach, ,5) Include(FreeSurferCommandsRegistration, ,5) Include(FreeSurferCommandsIntensityNormalization, ,5) Include(FreeSurferCommandsSkullStripping, ,5) Include(FreeSurferCommandsSegmentation, ,5) Include(FreeSurferCommandsVolumeMisc, ,5)
Include(FreeSurferCommandsSurfaceGeneration, ,5) Include(FreeSurferCommandsSurfaceSmoothing, ,5) Include(FreeSurferCommandsSurfaceInflation, ,5) Include(FreeSurferCommandsTopologyFixing, ,5) Include(FreeSurferCommandsInterSubjectMorphing, ,5) Include(FreeSurferCommandsFinalSurfaceGeneration, ,5) Include(FreeSurferCommandsSurfaceParcellation, ,5) Include(FreeSurferCommandsFlattening, ,5) Include(FreeSurferCommandsSurfaceMisc, ,5)