Hello all,
After I imported the waxholm_rat atlas, however when i use the @auto_tlrc -base waxholm_rat function it shows " Error: Template waxholm_rat could not be located ".
Could anyone help me to solve this out ? And also i tried to key the command "suma -onestate -i waxrat.cornu*.gii waxrat.dentate*.gii waxrat..entorhinal*.gii waxrat.*hippo*.gii waxrat.*subiculum*.gii &", which was mentioned in the Rat atlas announcement article, it showed "suma : No match.".
ps. the information about whereami -show_atlases was below
++ ----- Atlas list: -------
++ Name Space Dataset Description
++ __________________________________________________________
++ TT_Daemon TLRC /Users/dogdogman/abin//TTatlas+tlrc Talairach-Tournoux Atlas
++ CA_N27_ML TT_N27 /Users/dogdogman/abin//TT_caez_ml_18+tlrc Macro Labels (N27)
++ CA_N27_MPM TT_N27 /Users/dogdogman/abin//TT_caez_mpm_18+tlrc Cytoarch. Max. Prob. Maps
++ CA_N27_PM TT_N27 /Users/dogdogman/abin//TT_caez_pmaps_18+tlrc Cytoarch. Probabilistic Maps
++ CA_N27_GW TT_N27 /Users/dogdogman/abin//TT_caez_gw_18+tlrc Cytoarch. Prob. Maps for gray/white matter
++ CA_N27_LR TT_N27 /Users/dogdogman/abin//TT_caez_lr_18+tlrc Left/Right (N27)
++ CA_ML_18_MNIA MNI_ANAT /Users/dogdogman/abin//MNIa_caez_ml_18+tlrc Macro Labels (N27)
++ CA_MPM_18_MNIA MNI_ANAT /Users/dogdogman/abin//MNIa_caez_mpm_18+tlrc Cytoarch. Max. Prob. Maps
++ CA_PM_18_MNIA MNI_ANAT /Users/dogdogman/abin//MNIa_caez_pmaps_18+tlrc Cytoarch. Probabilistic Maps
++ CA_GW_18_MNIA MNI_ANAT /Users/dogdogman/abin//MNIa_caez_gw_18+tlrc Cytoarch. Prob. Maps for gray/white matter
++ CA_LR_18_MNIA MNI_ANAT /Users/dogdogman/abin//MNIa_caez_lr_18+tlrc Left/Right (N27)
++ DKD_Desai_PM TT_N27 /Users/dogdogman/abin//TT_desai_dkpmaps+tlrc Probability maps of 35 cortical areas (gyri)
++ DD_Desai_PM TT_N27 /Users/dogdogman/abin//TT_desai_ddpmaps+tlrc Probability maps of 75 cortical areas
++ FS_Desai_PM TT_N27 /Users/dogdogman/abin//TT_desai_fspmaps+tlrc Contains 40 subcortical areas
++ DD_Desai_MPM TT_N27 /Users/dogdogman/abin//TT_desai_dd_mpm+tlrc Contains the maximum probability maps of Desai DD and FS maps
++ DKD_Desai_MPM TT_N27 /Users/dogdogman/abin//TT_desai_dk_mpm+tlrc Contains the maximum probability maps of Desai DKD and FS maps
++ MNI_VmPFC MNI /Users/dogdogman/abin//MNI_VmPFC+tlrc Ventromedial Prefrontal Cortex
++ Haskins_Pediatric_Affine_ HaskinsPeds /Users/dogdogman/abin//HaskinsPeds_aff_atlas1.0+tlrc.HEAD Version 1.0
++ Haskins_Pediatric_Nonline HaskinsPeds /Users/dogdogman/abin//HaskinsPeds_NL_atlas1.0+tlrc.HEAD Version 1.0
++ waxholm_rat waxholm_rat /Users/dogdogman/Downloads/ratbrain//wax_rat_atlas_v2.nii.gz Waxholm V2.0
++
++ TT_Daemon: The standard talaraich atlas
++ CA_N27_ML: Eickhoff-Zilles macro labels from N27 in Talairach TT_N27 space
SPM ANATOMY TOOLBOX v1.8
Primary references:
Contact: Simon Eickhoff (s.eickhoff@fz-juelich.de)
Eickhoff SB et al.: A new SPM toolbox... (2005) NeuroImage 25(4): 1325-1335
Eickhoff SB et al.: Testing anatomically specified hypotheses... (2006) NeuroImage 32(2): 570-82
Eickhoff SB et al.: Assignment of functional activations... (2007) NeuroImage 36(3): 511-521
Publications describing included probabilistic maps:
TE 1.0, TE 1.1, TE 1.2------------------------------------------ Morosan et al., NeuroImage 2001
BA 44, BA 45---------------------------------------------------- Amunts et al., J Comp Neurol 1999
BA 4a, BA 4p BA 6----------------------------------------------- Geyer et al., Nature 1996 S. Geyer,
Springer press 2003
BA 3a, BA 3b, BA 1 BA 2----------------------------------------- Geyer et al., NeuroImage, 1999, 2000
Grefkes et al., NeuroImage 2001
OP 1, OP 2, OP 3, OP 4------------------------------------------ Eickhoff et al., Cerebral Cortex 2006a,b
PFt, PF, PFm, PFcm, PFop, PGa, PGp 5Ci, 5L, 5M, 7A, 7M, 7P, 7PC- Caspers et al., Neuroimage 2007, BSF 2008
Scheperjans et al., Cerebral Cortex 2008a,b
hIP1, hIP2 hIP3------------------------------------------------- Choi et al., J Comp Neurol 2006
Scheperjans et al., Cerebral Cortex 2008a,b
Ig1, Ig2, Id1--------------------------------------------------- Kurth et al., Cerebral Cortex 2010
CM/LB/SF FD/CA/SUB/EC/HATA-------------------------------------- Amunts et al., Anat Embryol 2005
Amunts et al., Anat Embryol 2005
BA 17, BA 18 hOC5 hOC3v / hOC4v--------------------------------- Amunts et al., NeuroImage 2000
Malikovic et al., Cerebral Cortex 2006
Rottschy et al., Hum Brain Mapp 2007
13 structures--------------------------------------------------- Burgel et al., NeuroImage 1999, 2006
18 structures--------------------------------------------------- Diedrichsen et al., NeuroImage 2009
Other areas may only be used with authors' permission !
AFNI adaptation by
Ziad S. Saad and Daniel Glen (SSCC/NIMH/NIH)
++ CA_N27_MPM: Eickhoff-Zilles maximum probability map on TT_N27 from post-mortem analysis
++ CA_N27_PM: Eickhoff-Zilles probablity maps on TT_N27 from post-mortem analysis
++ CA_N27_GW: Eickhoff-Zilles probablity maps on MNI-152 from post-mortem analysis
++ CA_N27_LR: Simple left, right hemisphere segmentation
++ CA_ML_18_MNIA: Eickhoff-Zilles macro labels from N27
++ CA_MPM_18_MNIA: Eickhoff-Zilles maximum probability map on MNI-152 from post-mortem analysis
++ CA_PM_18_MNIA: Eickhoff-Zilles probablity maps on MNI-152 from post-mortem analysis
++ CA_GW_18_MNIA: Eickhoff-Zilles probablity maps on MNI-152 from post-mortem analysis
++ CA_LR_18_MNIA: Simple left, right hemisphere segmentation
++ DKD_Desai_PM:
Please cite:
Desikan et al., Neuroimage 2006 (31) pp. 968-980.
++ DD_Desai_PM:
For each hemisphere,including both gyri and sulci.
Please cite:
Destrieux et al., Neuroimage 2010 (53) pp. 1-15.
++ FS_Desai_PM: 15 in left & right hemispheres,10 midline structures parcellated by freesurfer
++ DD_Desai_MPM: Smoothed maximum maps masked by unsmoothed maximum map
++ DKD_Desai_MPM: Smoothed maximum maps masked by unsmoothed maximum map
++ MNI_VmPFC: Mackey, S. and Petrides, M. (2014), Architecture and morphology
of the human ventromedial prefrontal cortex. European Journal
of Neuroscience, 40: 2777-796. doi: 10.1111/ejn.12654
++ Haskins_Pediatric_Affine_1.0: Haskins Atlas 1.0. REF: Molfese, Glen, Mesite, Pugh... (In Prep.)
++ Haskins_Pediatric_Nonlinear_1.0: Haskins Atlas 1.0. REF: Molfese, Glen, Mesite, Pugh... (In Prep.)
++ waxholm_rat: For the overall atlas, please cite:
Papp EA, Leergaard TB, Calabrese E, Johnson GA,
Bjaalie, JG (2014) Waxholm Space atlas of the Sprague Dawley rat brain.
NeuroImage 97, 374-386
For the hippocampal region, please cite:
Kjonigsen LJ, Lillehaug S, Bjaalie JG, Witter MP, Leergaard TB (2015)
Waxholm Space atlas of the rat brain hippocampal region: Three-dimensional
delineations based on magnetic resonance and diffusion tensor imaging.
NeuroImage 108, 441-449
