R/neuronlist_interactive_3d.R
Can also choose to select specific neurons along the way and navigate forwards and backwards.
nlscan(neurons, db = NULL, col = "red", Verbose = T, Wait = T, sleep = 0.1, extrafun = NULL, selected_file = NULL, selected_col = "green", yaml = TRUE, ...)
neurons | a |
---|---|
db | A neuronlist to use as the source of objects to plot. If
|
col | the color with which to plot the neurons (default |
Verbose | logical indicating that info about each selected neuron should
be printed (default |
Wait | logical indicating that there should be a pause between each displayed neuron. |
sleep | time to pause between each displayed neuron when
|
extrafun | an optional function called when each neuron is plotted, with
two arguments: the current neuron name and the current |
selected_file | an optional path to a |
selected_col | the color in which selected neurons (such as those
specified in |
yaml | a logical indicating that selections should be saved to disk in
(human-readable) |
... | extra arguments to pass to |
A character vector of names of any selected neurons, of length 0 if none selected.
plot3d.character
, plot3d.neuronlist
# NOT RUN { # scan a neuronlist nlscan(kcs20) # using neuron names nlscan(names(kcs20), db=kcs20) # equivalently using a default neuron list options(nat.default.neuronlist='kcs20') nlscan(names(kcs20)) # }# scan without waiting nlscan(kcs20[1:4], Wait=FALSE, sleep=0)#> Current neuron: FruMARCM-M001205_seg002 ( 1 / 4 ) #> Current neuron: GadMARCM-F000122_seg001 ( 2 / 4 ) #> Current neuron: GadMARCM-F000050_seg001 ( 3 / 4 ) #> Current neuron: GadMARCM-F000142_seg002 ( 4 / 4 )#> NULL# NOT RUN { # could select e.g. the gamma neurons with unbranched axons gammas=nlscan(kcs20) clear3d() plot3d(kcs20[gammas]) # plot surface model of brain first # nb depends on package only available on github devtools::install_github(username = "jefferislab/nat.flybrains") library(nat.flybrains) plot3d(FCWB) # could select e.g. the gamma neurons with unbranched axons gammas=nlscan(kcs20) clear3d() plot3d(kcs20[gammas]) # }