Cannot find CCFv3 dataset
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Dear Professor,
I want to know where I can find this file when I try this great STitch3D.
#3D coordinates and model are based on CCFv3.
load("spotstable.RData")
load("VOLUMESMALL.RData")
load("VOLUME.RData")
in this part, "Run STitch3D on the adult mouse brain dataset"
Thank you so much!
Hi Cristal,
"spotstable.RData" is a data frame named "spots.table", containing meta information of spots. You can get this data frame by including sources provided by the original publication following this code. Then run spots.table <- add.parent.acronym(load.spots.table()) to get the data frame.
"VOLUMESMALL.RData" and "VOLUME.RData" contain 3D mesh models of mouse brain. You can load them by running the following code:
library(wholebrain)
attach(loadNamespace('wholebrain'), warn.conflicts = FALSE)
which depends on package "wholebrain".
Dear Gefei,
Thanks for your reply! It is really helpful!! However, I still cannot run the sources provided by the original publication following this code, the R studio gives me the error:
Do you know how to deal with this problem? Thanks a lot!
Hi Cristal,
You may need to also modify path.bin and path.matrices to the corresponding folders.