FAFB13.surf describes the neuropil surface of the FAFB13
brain.
FAFB13NP.surf is a surface object for the Ito et al
(2014) neuropil regions in FAFB13 space
FAFB14.surf describes the neuropil surface of the FAFB14
assembly.
FAFB.surf describes the neuropil surface of the default
FAFB assembly (currently FAFB14).
FAFB14NP.surf is a surface object for the Ito et al
(2014) neuropil regions in FAFB14 space
FAFBNP.surf is a surface object for the Ito et al (2014)
neuropil regions in the default FAFB space (currently FAFB14)
These neuropil regions are generated from the
JFRC2.surf and
JFRC2NP.surf objects, respectively. Because
they are not defined from FAFB itself but transformed using bridging
registrations, they are only as good as those bridging registrations. In
particular although the elm.landmarks used to bridge
FAFB-JFRC2013 are well defined in the fly's right brain hemisphere, they
are somewhat less dense in other areas. Therefore these surfaces are clearly
likely less accurate in the left brain hemisphere and show significant
displacements in the optic lobes. Note that updated landmarks in March 2017
significantly improved the situation.
The acronyms for the neuropil regions are those used in Ito et al. 2014 and can also be looked up at http://virtualflybrain.org.
FAFB template brain
boundingbox(FAFB14.surf)#> [,1] [,2] [,3] #> [1,] 213175.6 77531.3 799.2 #> [2,] 840529.0 388177.9 269583.7 #> attr(,"class") #> [1] "boundingbox"FAFB14NP.surf$RegionList#> [1] "AME_R" "LO_R" "NO" "BU_R" "PB" "LH_R" #> [7] "LAL_R" "SAD" "CAN_R" "AMMC_R" "ICL_R" "VES_R" #> [13] "IB_R" "ATL_R" "CRE_R" "MB_PED_R" "MB_VL_R" "MB_ML_R" #> [19] "FLA_R" "LOP_R" "EB" "AL_R" "ME_R" "FB" #> [25] "SLP_R" "SIP_R" "SMP_R" "AVLP_R" "PVLP_R" "WED_R" #> [31] "PLP_R" "AOTU_R" "GOR_R" "MB_CA_R" "SPS_R" "IPS_R" #> [37] "SCL_R" "EPA_R" "GNG" "PRW" "GA_R" "AME_L" #> [43] "LO_L" "BU_L" "LH_L" "LAL_L" "CAN_L" "AMMC_L" #> [49] "ICL_L" "VES_L" "IB_L" "ATL_L" "CRE_L" "MB_PED_L" #> [55] "MB_VL_L" "MB_ML_L" "FLA_L" "LOP_L" "AL_L" "ME_L" #> [61] "SLP_L" "SIP_L" "SMP_L" "AVLP_L" "PVLP_L" "WED_L" #> [67] "PLP_L" "AOTU_L" "GOR_L" "MB_CA_L" "SPS_L" "IPS_L" #> [73] "SCL_L" "EPA_L" "GA_L"if (FALSE) { plot3d(FAFB14.surf) clear3d() # a short cut which plots the surface in semi-transparent grey. plot3d(FAFB14) # plot right lateral horn plot3d(FAFB14NP.surf, "LH_R", alpha=0.4) # plot both antennal lobe surfaces (second arg is regex if no exact match) # note use of initial anchor (^) to avoid matches to LAL plot3d(FAFB14NP.surf, "^AL", alpha=0.4) }