[IN-PROGRESS] not all available atlases have been added to this notebook yet¶

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import yabplot as yab
import yabplot as yab

available atlases & resources¶

yabplot comes pre-packaged with support for several standard neuroimaging atlases. you can specify these using the atlas string argument in plotting functions.

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yab.get_available_resources()
yab.get_available_resources()

Out[2]:

{'cortical': ['aal3',
  'aparc',
  'brainnetome',
  'schaefer_100',
  'schaefer_1000',
  'schaefer_200',
  'schaefer_300',
  'schaefer_400'],
 'subcortical': ['aal3',
  'aal3_nocer',
  'aseg',
  'brainnetome_sc',
  'jhu',
  'musus100_dbn',
  'tian2020_sc'],
 'tracts': ['hcp1065_medium',
  'hcp1065_small',
  'hcp1065_tiny',
  'xtract_large',
  'xtract_medium',
  'xtract_small',
  'xtract_tiny'],
 'bmesh': ['inflated',
  'midthickness',
  'pial',
  'swm',
  'very_inflated',
  'white'],
 'label': ['nomedialwall']}

🧠 cortical parcellations¶

used with yabplot.plot_cortical(atlas='name').

Desikan-Killiany (`aparc`)¶

the default FreeSurfer parcellation.

key: 'aparc'
regions: 70 (35 per hemisphere)
reference: Desikan et al., 2006

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print(yab.get_atlas_regions(atlas='aparc', category='cortical'))
p = yab.plot_cortical(atlas='aparc', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300), proc_vertices='sharp')
print(yab.get_atlas_regions(atlas='aparc', category='cortical'))
p = yab.plot_cortical(atlas='aparc', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300), proc_vertices='sharp')

['L_bankssts', 'L_caudalanteriorcingulate', 'L_caudalmiddlefrontal', 'L_corpuscallosum', 'L_cuneus', 'L_entorhinal', 'L_fusiform', 'L_inferiorparietal', 'L_inferiortemporal', 'L_isthmuscingulate', 'L_lateraloccipital', 'L_lateralorbitofrontal', 'L_lingual', 'L_medialorbitofrontal', 'L_middletemporal', 'L_parahippocampal', 'L_paracentral', 'L_parsopercularis', 'L_parsorbitalis', 'L_parstriangularis', 'L_pericalcarine', 'L_postcentral', 'L_posteriorcingulate', 'L_precentral', 'L_precuneus', 'L_rostralanteriorcingulate', 'L_rostralmiddlefrontal', 'L_superiorfrontal', 'L_superiorparietal', 'L_superiortemporal', 'L_supramarginal', 'L_frontalpole', 'L_temporalpole', 'L_transversetemporal', 'L_insula', 'R_bankssts', 'R_caudalanteriorcingulate', 'R_caudalmiddlefrontal', 'R_corpuscallosum', 'R_cuneus', 'R_entorhinal', 'R_fusiform', 'R_inferiorparietal', 'R_inferiortemporal', 'R_isthmuscingulate', 'R_lateraloccipital', 'R_lateralorbitofrontal', 'R_lingual', 'R_medialorbitofrontal', 'R_middletemporal', 'R_parahippocampal', 'R_paracentral', 'R_parsopercularis', 'R_parsorbitalis', 'R_parstriangularis', 'R_pericalcarine', 'R_postcentral', 'R_posteriorcingulate', 'R_precentral', 'R_precuneus', 'R_rostralanteriorcingulate', 'R_rostralmiddlefrontal', 'R_superiorfrontal', 'R_superiorparietal', 'R_superiortemporal', 'R_supramarginal', 'R_frontalpole', 'R_temporalpole', 'R_transversetemporal', 'R_insula']

No description has been provided for this image

Schaefer (2018)¶

functional parcellation based on resting-state fMRI. available in multiple granularities.

keys: 'schaefer_100', 'schaefer_200', 'schaefer_300', 'schaefer_400', 'schaefer_1000'
reference: Schaefer et al., 2018

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print(yab.get_atlas_regions(atlas='schaefer_400', category='cortical'))
p = yab.plot_cortical(atlas='schaefer_400', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300))
print(yab.get_atlas_regions(atlas='schaefer_400', category='cortical'))
p = yab.plot_cortical(atlas='schaefer_400', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300))

['7Networks_LH_Vis_1', '7Networks_LH_Vis_2', '7Networks_LH_Vis_3', '7Networks_LH_Vis_4', '7Networks_LH_Vis_5', '7Networks_LH_Vis_6', '7Networks_LH_Vis_7', '7Networks_LH_Vis_8', '7Networks_LH_Vis_9', '7Networks_LH_Vis_10', '7Networks_LH_Vis_11', '7Networks_LH_Vis_12', '7Networks_LH_Vis_13', '7Networks_LH_Vis_14', '7Networks_LH_Vis_15', '7Networks_LH_Vis_16', '7Networks_LH_Vis_17', '7Networks_LH_Vis_18', '7Networks_LH_Vis_19', '7Networks_LH_Vis_20', '7Networks_LH_Vis_21', '7Networks_LH_Vis_22', '7Networks_LH_Vis_23', '7Networks_LH_Vis_24', '7Networks_LH_Vis_25', '7Networks_LH_Vis_26', '7Networks_LH_Vis_27', '7Networks_LH_Vis_28', '7Networks_LH_Vis_29', '7Networks_LH_Vis_30', '7Networks_LH_Vis_31', '7Networks_LH_SomMot_1', '7Networks_LH_SomMot_2', '7Networks_LH_SomMot_3', '7Networks_LH_SomMot_4', '7Networks_LH_SomMot_5', '7Networks_LH_SomMot_6', '7Networks_LH_SomMot_7', '7Networks_LH_SomMot_8', '7Networks_LH_SomMot_9', '7Networks_LH_SomMot_10', '7Networks_LH_SomMot_11', '7Networks_LH_SomMot_12', '7Networks_LH_SomMot_13', '7Networks_LH_SomMot_14', '7Networks_LH_SomMot_15', '7Networks_LH_SomMot_16', '7Networks_LH_SomMot_17', '7Networks_LH_SomMot_18', '7Networks_LH_SomMot_19', '7Networks_LH_SomMot_20', '7Networks_LH_SomMot_21', '7Networks_LH_SomMot_22', '7Networks_LH_SomMot_23', '7Networks_LH_SomMot_24', '7Networks_LH_SomMot_25', '7Networks_LH_SomMot_26', '7Networks_LH_SomMot_27', '7Networks_LH_SomMot_28', '7Networks_LH_SomMot_29', '7Networks_LH_SomMot_30', '7Networks_LH_SomMot_31', '7Networks_LH_SomMot_32', '7Networks_LH_SomMot_33', '7Networks_LH_SomMot_34', '7Networks_LH_SomMot_35', '7Networks_LH_SomMot_36', '7Networks_LH_SomMot_37', '7Networks_LH_DorsAttn_Post_1', '7Networks_LH_DorsAttn_Post_2', '7Networks_LH_DorsAttn_Post_3', '7Networks_LH_DorsAttn_Post_4', '7Networks_LH_DorsAttn_Post_5', '7Networks_LH_DorsAttn_Post_6', '7Networks_LH_DorsAttn_Post_7', '7Networks_LH_DorsAttn_Post_8', '7Networks_LH_DorsAttn_Post_9', '7Networks_LH_DorsAttn_Post_10', '7Networks_LH_DorsAttn_Post_11', '7Networks_LH_DorsAttn_Post_12', '7Networks_LH_DorsAttn_Post_13', '7Networks_LH_DorsAttn_Post_14', '7Networks_LH_DorsAttn_Post_15', '7Networks_LH_DorsAttn_Post_16', '7Networks_LH_DorsAttn_Post_17', '7Networks_LH_DorsAttn_FEF_1', '7Networks_LH_DorsAttn_FEF_2', '7Networks_LH_DorsAttn_FEF_3', '7Networks_LH_DorsAttn_FEF_4', '7Networks_LH_DorsAttn_PrCv_1', '7Networks_LH_DorsAttn_PrCv_2', '7Networks_LH_SalVentAttn_ParOper_1', '7Networks_LH_SalVentAttn_ParOper_2', '7Networks_LH_SalVentAttn_ParOper_3', '7Networks_LH_SalVentAttn_ParOper_4', '7Networks_LH_SalVentAttn_TempOcc_1', '7Networks_LH_SalVentAttn_FrOperIns_1', '7Networks_LH_SalVentAttn_FrOperIns_2', '7Networks_LH_SalVentAttn_FrOperIns_3', '7Networks_LH_SalVentAttn_FrOperIns_4', '7Networks_LH_SalVentAttn_FrOperIns_5', '7Networks_LH_SalVentAttn_FrOperIns_6', '7Networks_LH_SalVentAttn_FrOperIns_7', '7Networks_LH_SalVentAttn_FrOperIns_8', '7Networks_LH_SalVentAttn_FrOperIns_9', '7Networks_LH_SalVentAttn_PFCl_1', '7Networks_LH_SalVentAttn_Med_1', '7Networks_LH_SalVentAttn_Med_2', '7Networks_LH_SalVentAttn_Med_3', '7Networks_LH_SalVentAttn_Med_4', '7Networks_LH_SalVentAttn_Med_5', '7Networks_LH_SalVentAttn_Med_6', '7Networks_LH_SalVentAttn_Med_7', '7Networks_LH_Limbic_OFC_1', '7Networks_LH_Limbic_OFC_2', '7Networks_LH_Limbic_OFC_3', '7Networks_LH_Limbic_OFC_4', '7Networks_LH_Limbic_OFC_5', '7Networks_LH_Limbic_TempPole_1', '7Networks_LH_Limbic_TempPole_2', '7Networks_LH_Limbic_TempPole_3', '7Networks_LH_Limbic_TempPole_4', '7Networks_LH_Limbic_TempPole_5', '7Networks_LH_Limbic_TempPole_6', '7Networks_LH_Limbic_TempPole_7', '7Networks_LH_Limbic_TempPole_8', '7Networks_LH_Cont_Par_1', '7Networks_LH_Cont_Par_2', '7Networks_LH_Cont_Par_3', '7Networks_LH_Cont_Par_4', '7Networks_LH_Cont_Par_5', '7Networks_LH_Cont_Par_6', '7Networks_LH_Cont_Temp_1', '7Networks_LH_Cont_OFC_1', '7Networks_LH_Cont_PFCl_1', '7Networks_LH_Cont_PFCl_2', '7Networks_LH_Cont_PFCl_3', '7Networks_LH_Cont_PFCl_4', '7Networks_LH_Cont_PFCl_5', '7Networks_LH_Cont_PFCl_6', '7Networks_LH_Cont_PFCl_7', '7Networks_LH_Cont_PFCl_8', '7Networks_LH_Cont_PFCv_1', '7Networks_LH_Cont_pCun_1', '7Networks_LH_Cont_pCun_2', '7Networks_LH_Cont_Cing_1', '7Networks_LH_Cont_Cing_2', '7Networks_LH_Cont_PFCmp_1', '7Networks_LH_Default_Temp_1', '7Networks_LH_Default_Temp_2', '7Networks_LH_Default_Temp_3', '7Networks_LH_Default_Temp_4', '7Networks_LH_Default_Temp_5', '7Networks_LH_Default_Temp_6', '7Networks_LH_Default_Temp_7', '7Networks_LH_Default_Temp_8', '7Networks_LH_Default_Temp_9', '7Networks_LH_Default_Temp_10', '7Networks_LH_Default_Par_1', '7Networks_LH_Default_Par_2', '7Networks_LH_Default_Par_3', '7Networks_LH_Default_Par_4', '7Networks_LH_Default_Par_5', '7Networks_LH_Default_Par_6', '7Networks_LH_Default_Par_7', '7Networks_LH_Default_PFC_1', '7Networks_LH_Default_PFC_2', '7Networks_LH_Default_PFC_3', '7Networks_LH_Default_PFC_4', '7Networks_LH_Default_PFC_5', '7Networks_LH_Default_PFC_6', '7Networks_LH_Default_PFC_7', '7Networks_LH_Default_PFC_8', '7Networks_LH_Default_PFC_9', '7Networks_LH_Default_PFC_10', '7Networks_LH_Default_PFC_11', '7Networks_LH_Default_PFC_12', '7Networks_LH_Default_PFC_13', '7Networks_LH_Default_PFC_14', '7Networks_LH_Default_PFC_15', '7Networks_LH_Default_PFC_16', '7Networks_LH_Default_PFC_17', '7Networks_LH_Default_PFC_18', '7Networks_LH_Default_PFC_19', '7Networks_LH_Default_PFC_20', '7Networks_LH_Default_PFC_21', '7Networks_LH_Default_PFC_22', '7Networks_LH_Default_PFC_23', '7Networks_LH_Default_PFC_24', '7Networks_LH_Default_pCunPCC_1', '7Networks_LH_Default_pCunPCC_2', '7Networks_LH_Default_pCunPCC_3', '7Networks_LH_Default_pCunPCC_4', '7Networks_LH_Default_pCunPCC_5', '7Networks_LH_Default_pCunPCC_6', '7Networks_LH_Default_pCunPCC_7', '7Networks_LH_Default_pCunPCC_8', '7Networks_LH_Default_pCunPCC_9', '7Networks_LH_Default_pCunPCC_10', '7Networks_LH_Default_pCunPCC_11', '7Networks_RH_Vis_1', '7Networks_RH_Vis_2', '7Networks_RH_Vis_3', '7Networks_RH_Vis_4', '7Networks_RH_Vis_5', '7Networks_RH_Vis_6', '7Networks_RH_Vis_7', '7Networks_RH_Vis_8', '7Networks_RH_Vis_9', '7Networks_RH_Vis_10', '7Networks_RH_Vis_11', '7Networks_RH_Vis_12', '7Networks_RH_Vis_13', '7Networks_RH_Vis_14', '7Networks_RH_Vis_15', '7Networks_RH_Vis_16', '7Networks_RH_Vis_17', '7Networks_RH_Vis_18', '7Networks_RH_Vis_19', '7Networks_RH_Vis_20', '7Networks_RH_Vis_21', '7Networks_RH_Vis_22', '7Networks_RH_Vis_23', '7Networks_RH_Vis_24', '7Networks_RH_Vis_25', '7Networks_RH_Vis_26', '7Networks_RH_Vis_27', '7Networks_RH_Vis_28', '7Networks_RH_Vis_29', '7Networks_RH_Vis_30', '7Networks_RH_SomMot_1', '7Networks_RH_SomMot_2', '7Networks_RH_SomMot_3', '7Networks_RH_SomMot_4', '7Networks_RH_SomMot_5', '7Networks_RH_SomMot_6', '7Networks_RH_SomMot_7', '7Networks_RH_SomMot_8', '7Networks_RH_SomMot_9', '7Networks_RH_SomMot_10', '7Networks_RH_SomMot_11', '7Networks_RH_SomMot_12', '7Networks_RH_SomMot_13', '7Networks_RH_SomMot_14', '7Networks_RH_SomMot_15', '7Networks_RH_SomMot_16', '7Networks_RH_SomMot_17', '7Networks_RH_SomMot_18', '7Networks_RH_SomMot_19', '7Networks_RH_SomMot_20', '7Networks_RH_SomMot_21', '7Networks_RH_SomMot_22', '7Networks_RH_SomMot_23', '7Networks_RH_SomMot_24', '7Networks_RH_SomMot_25', '7Networks_RH_SomMot_26', '7Networks_RH_SomMot_27', '7Networks_RH_SomMot_28', '7Networks_RH_SomMot_29', '7Networks_RH_SomMot_30', '7Networks_RH_SomMot_31', '7Networks_RH_SomMot_32', '7Networks_RH_SomMot_33', '7Networks_RH_SomMot_34', '7Networks_RH_SomMot_35', '7Networks_RH_SomMot_36', '7Networks_RH_SomMot_37', '7Networks_RH_SomMot_38', '7Networks_RH_SomMot_39', '7Networks_RH_SomMot_40', '7Networks_RH_DorsAttn_Post_1', '7Networks_RH_DorsAttn_Post_2', '7Networks_RH_DorsAttn_Post_3', '7Networks_RH_DorsAttn_Post_4', '7Networks_RH_DorsAttn_Post_5', '7Networks_RH_DorsAttn_Post_6', '7Networks_RH_DorsAttn_Post_7', '7Networks_RH_DorsAttn_Post_8', '7Networks_RH_DorsAttn_Post_9', '7Networks_RH_DorsAttn_Post_10', '7Networks_RH_DorsAttn_Post_11', '7Networks_RH_DorsAttn_Post_12', '7Networks_RH_DorsAttn_Post_13', '7Networks_RH_DorsAttn_Post_14', '7Networks_RH_DorsAttn_Post_15', '7Networks_RH_DorsAttn_Post_16', '7Networks_RH_DorsAttn_Post_17', '7Networks_RH_DorsAttn_Post_18', '7Networks_RH_DorsAttn_Post_19', '7Networks_RH_DorsAttn_FEF_1', '7Networks_RH_DorsAttn_FEF_2', '7Networks_RH_DorsAttn_FEF_3', '7Networks_RH_DorsAttn_PrCv_1', '7Networks_RH_SalVentAttn_TempOccPar_1', '7Networks_RH_SalVentAttn_TempOccPar_2', '7Networks_RH_SalVentAttn_TempOccPar_3', '7Networks_RH_SalVentAttn_TempOccPar_4', '7Networks_RH_SalVentAttn_TempOccPar_5', '7Networks_RH_SalVentAttn_TempOccPar_6', '7Networks_RH_SalVentAttn_TempOccPar_7', '7Networks_RH_SalVentAttn_PrC_1', '7Networks_RH_SalVentAttn_FrOperIns_1', '7Networks_RH_SalVentAttn_FrOperIns_2', '7Networks_RH_SalVentAttn_FrOperIns_3', '7Networks_RH_SalVentAttn_FrOperIns_4', '7Networks_RH_SalVentAttn_FrOperIns_5', '7Networks_RH_SalVentAttn_FrOperIns_6', '7Networks_RH_SalVentAttn_FrOperIns_7', '7Networks_RH_SalVentAttn_FrOperIns_8', '7Networks_RH_SalVentAttn_PFCl_1', '7Networks_RH_SalVentAttn_Med_1', '7Networks_RH_SalVentAttn_Med_2', '7Networks_RH_SalVentAttn_Med_3', '7Networks_RH_SalVentAttn_Med_4', '7Networks_RH_SalVentAttn_Med_5', '7Networks_RH_SalVentAttn_Med_6', '7Networks_RH_SalVentAttn_Med_7', '7Networks_RH_SalVentAttn_Med_8', '7Networks_RH_Limbic_OFC_1', '7Networks_RH_Limbic_OFC_2', '7Networks_RH_Limbic_OFC_3', '7Networks_RH_Limbic_OFC_4', '7Networks_RH_Limbic_OFC_5', '7Networks_RH_Limbic_OFC_6', '7Networks_RH_Limbic_TempPole_1', '7Networks_RH_Limbic_TempPole_2', '7Networks_RH_Limbic_TempPole_3', '7Networks_RH_Limbic_TempPole_4', '7Networks_RH_Limbic_TempPole_5', '7Networks_RH_Limbic_TempPole_6', '7Networks_RH_Limbic_TempPole_7', '7Networks_RH_Cont_Par_1', '7Networks_RH_Cont_Par_2', '7Networks_RH_Cont_Par_3', '7Networks_RH_Cont_Par_4', '7Networks_RH_Cont_Par_5', '7Networks_RH_Cont_Par_6', '7Networks_RH_Cont_Temp_1', '7Networks_RH_Cont_Temp_2', '7Networks_RH_Cont_PFCv_1', '7Networks_RH_Cont_PFCl_1', '7Networks_RH_Cont_PFCl_2', '7Networks_RH_Cont_PFCl_3', '7Networks_RH_Cont_PFCl_4', '7Networks_RH_Cont_PFCl_5', '7Networks_RH_Cont_PFCl_6', '7Networks_RH_Cont_PFCl_7', '7Networks_RH_Cont_PFCl_8', '7Networks_RH_Cont_PFCl_9', '7Networks_RH_Cont_PFCl_10', '7Networks_RH_Cont_PFCl_11', '7Networks_RH_Cont_PFCl_12', '7Networks_RH_Cont_PFCl_13', '7Networks_RH_Cont_PFCl_14', '7Networks_RH_Cont_PFCl_15', '7Networks_RH_Cont_pCun_1', '7Networks_RH_Cont_pCun_2', '7Networks_RH_Cont_Cing_1', '7Networks_RH_Cont_Cing_2', '7Networks_RH_Cont_PFCmp_1', '7Networks_RH_Cont_PFCmp_2', '7Networks_RH_Default_Par_1', '7Networks_RH_Default_Par_2', '7Networks_RH_Default_Par_3', '7Networks_RH_Default_Par_4', '7Networks_RH_Default_Par_5', '7Networks_RH_Default_Temp_1', '7Networks_RH_Default_Temp_2', '7Networks_RH_Default_Temp_3', '7Networks_RH_Default_Temp_4', '7Networks_RH_Default_Temp_5', '7Networks_RH_Default_Temp_6', '7Networks_RH_Default_Temp_7', '7Networks_RH_Default_Temp_8', '7Networks_RH_Default_PFCv_1', '7Networks_RH_Default_PFCv_2', '7Networks_RH_Default_PFCv_3', '7Networks_RH_Default_PFCv_4', '7Networks_RH_Default_PFCdPFCm_1', '7Networks_RH_Default_PFCdPFCm_2', '7Networks_RH_Default_PFCdPFCm_3', '7Networks_RH_Default_PFCdPFCm_4', '7Networks_RH_Default_PFCdPFCm_5', '7Networks_RH_Default_PFCdPFCm_6', '7Networks_RH_Default_PFCdPFCm_7', '7Networks_RH_Default_PFCdPFCm_8', '7Networks_RH_Default_PFCdPFCm_9', '7Networks_RH_Default_PFCdPFCm_10', '7Networks_RH_Default_PFCdPFCm_11', '7Networks_RH_Default_PFCdPFCm_12', '7Networks_RH_Default_PFCdPFCm_13', '7Networks_RH_Default_pCunPCC_1', '7Networks_RH_Default_pCunPCC_2', '7Networks_RH_Default_pCunPCC_3', '7Networks_RH_Default_pCunPCC_4', '7Networks_RH_Default_pCunPCC_5', '7Networks_RH_Default_pCunPCC_6', '7Networks_RH_Default_pCunPCC_7', '7Networks_RH_Default_pCunPCC_8', '7Networks_RH_Default_pCunPCC_9']

and Brainnetome, AAL3

subcortical structures¶

used with yabplot.plot_subcortical(atlas='name').

FreeSurfer segmentation (`aseg`)¶

standard subcortical segmentation including Thalamus, Caudate, Putamen, etc.

key: 'aseg'
regions: 14 subcortical structures
reference: Fischl et al., 200200569-X)

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print(yab.get_atlas_regions('aseg', 'subcortical'))
p = yab.plot_subcortical(atlas='aseg', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300))
print(yab.get_atlas_regions('aseg', 'subcortical'))
p = yab.plot_subcortical(atlas='aseg', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300))

['Left_Accumbens_area', 'Left_Amygdala', 'Left_Caudate', 'Left_Hippocampus', 'Left_Pallidum', 'Left_Putamen', 'Left_Thalamus', 'Right_Accumbens_area', 'Right_Amygdala', 'Right_Caudate', 'Right_Hippocampus', 'Right_Pallidum', 'Right_Putamen', 'Right_Thalamus']

MuSus-100 DBN (`musus100_dbn`)¶

deep brain nuclei subregions

key: 'musus100_dbn'
regions: 20 deep brain nuclei
reference: He, C. et al., 2023

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print(yab.get_atlas_regions('musus100_dbn', 'subcortical'))
p = yab.plot_subcortical(atlas='musus100_dbn', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300))
print(yab.get_atlas_regions('musus100_dbn', 'subcortical'))
p = yab.plot_subcortical(atlas='musus100_dbn', views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300))

['L-Cau', 'L-GPe', 'L-GPi', 'L-NAcc', 'L-Pu', 'L-RN', 'L-SNc', 'L-SNr', 'L-STN', 'L-VP', 'R-Cau', 'R-GPe', 'R-GPi', 'R-NAcc', 'R-Pu', 'R-RN', 'R-SNc', 'R-SNr', 'R-STN', 'R-VP']

and AAL3, Tian2020

white matter tracts¶

used with yabplot.plot_tracts(atlas='name').

XTRACT standard¶

probabilistic tractography derived from the Human Connectome Project.

key: 'xtract_tiny' (subset) or 'hcp1065' (full)
reference: Warrington et al., 2020

In [10]:

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print(yab.get_atlas_regions('xtract_tiny', 'tracts'))
yab.plot_tracts(atlas='xtract_tiny', orientation_coloring=False, views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300), bmesh_type='inflated')
print(yab.get_atlas_regions('xtract_tiny', 'tracts'))
yab.plot_tracts(atlas='xtract_tiny', orientation_coloring=False, views=['left_lateral', 'superior', 'left_medial'], figsize=(800, 300), bmesh_type='inflated')

['AC', 'AF_L', 'AF_R', 'AR_R', 'ATR_L', 'ATR_R', 'CST_L', 'CST_R', 'Cing_Dorsal_L', 'Cing_Dorsal_R', 'Cing_Temp_L', 'Cing_Temp_R', 'FAT_L', 'FAT_R', 'FMaj', 'FMin', 'Fornix_L', 'Fornix_R', 'IFOF_L', 'IFOF_R', 'ILF_L', 'ILF_R', 'MCP', 'MdLF_L', 'OR_L', 'OR_R', 'SLF1_R', 'SLF2_L', 'SLF2_R', 'SLF3_L', 'SLF3_R', 'STR_L', 'STR_R', 'UF_L', 'UF_R', 'VOF_L', 'VOF_R']