analysis:fmri:afni
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analysis:fmri:afni [2021/03/08 18:11] – [Converting individual monkey brains to NMT] igorkagan | analysis:fmri:afni [2022/12/29 07:15] (current) – external edit 127.0.0.1 | ||
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3dAllineate -1Dmatrix_apply curius_anat_composite_linear_to_template.1D -prefix CU_NMT -source CUclean_20130627_ACPC.nii | 3dAllineate -1Dmatrix_apply curius_anat_composite_linear_to_template.1D -prefix CU_NMT -source CUclean_20130627_ACPC.nii | ||
- | |||
3dNwarpApply -nwarp curius_anat_shft_WARP.nii.gz -source CU_NMT+tlrc.BRIK | 3dNwarpApply -nwarp curius_anat_shft_WARP.nii.gz -source CU_NMT+tlrc.BRIK | ||
- | |||
3dAFNItoNIFTI CU_NMT_Nwarp+tlrc.BRIK | 3dAFNItoNIFTI CU_NMT_Nwarp+tlrc.BRIK | ||
+ | |||
+ | 3dAllineate -1Dmatrix_apply bacchus_2_anat_composite_linear_to_template.1D -prefix BA_NMT -source BA_noclean_20140711_ACPC_brain_NE_0.5.nii | ||
+ | 3dNwarpApply -nwarp bacchus_2_anat_shft_WARP.nii.gz -source BA_NMT+tlrc.BRIK | ||
+ | 3dAFNItoNIFTI BA_NMT_Nwarp+tlrc.BRIK | ||
</ | </ | ||
Line 15: | Line 17: | ||
===== Converting VMPs from original ACPC space to NMT ===== | ===== Converting VMPs from original ACPC space to NMT ===== | ||
- | Y: | + | E.g. Y: |
- | Original vmp: dPul_p.vmp, " | + | Original vmp: dPul_p.vmp, " |
+ | |||
+ | The approach works with multiple maps within vmp | ||
<code matlab> | <code matlab> | ||
+ | vmp.ExportNifti(' | ||
ne_change_nii_header_resolution(' | ne_change_nii_header_resolution(' | ||
</ | </ | ||
Line 37: | Line 42: | ||
ne_change_nii_header_resolution(' | ne_change_nii_header_resolution(' | ||
ne_afni_nii2vmp(' | ne_afni_nii2vmp(' | ||
+ | </ | ||
+ | |||
+ | ===== Converting electrode localization prob. maps VMPs from original ACPC space to NMT ===== | ||
+ | |||
+ | E.g. Y: | ||
+ | |||
+ | Original vmp: el_dPul_p.vmp, | ||
+ | |||
+ | <code matlab> | ||
+ | ne_vmp2vmr2nifti(' | ||
+ | ne_change_nii_header_resolution(' | ||
+ | </ | ||
+ | |||
+ | <code bash> | ||
+ | |||
+ | igor@alex-Precision-T3610: | ||
+ | cp / | ||
+ | 3dAllineate -master CU_NMT_Nwarp.nii -1Dmatrix_apply curius_anat_composite_linear_to_template.1D -prefix el_dPul_p -source | ||
+ | 3dNwarpApply -nwarp curius_anat_shft_WARP.nii.gz -source el_dPul_p+tlrc.BRIK | ||
+ | 3dAFNItoNIFTI el_dPul_p_Nwarp+tlrc.BRIK | ||
+ | sudo cp el_dPul_p_Nwarp.nii | ||
+ | |||
+ | </ | ||
+ | |||
+ | <code matlab> | ||
+ | ne_change_nii_header_resolution(' | ||
+ | ne_afni_nii2vmp(' | ||
</ | </ | ||
analysis/fmri/afni.1615227101.txt.gz · Last modified: 2022/12/29 07:15 (external edit)