R/fafbseg.R
read.neurons.fafbseg.Rd
Reads neurons (or node count data) from the temporary FAFB segmentation instance. containing auto-segmented fragments from Peter Li. Neurons can also be read using a neuroglancer server fafbseg::read.neurons.brainmaps or fafbseg::read_segments2 if from local .zip files
read.neurons.fafbseg(x, google = FALSE, conn = NULL, ...) fafbseg_get_node_count(x, read.from = c("CATMAID", "Neuroglancer", "local"), ...)
x | typically a skeleton ID in from the CATMAID FAFB v14-seg instance neuroglancer ID. |
---|---|
if TRUE, we treat x as the name of a Google FAFB segment. If name = FALSE, then x can be skeleton ids (numeric or characters) or the name / annotation for a neuron, if given as a character starting with 'name:' or 'annotation:' respectively. When Google FAFB fragments are merged, one name is maintained and the other may be found as an annotation. In order to check for this, annotations can also be read. |
|
conn | a CATMAID connection object. If NULL catmaid::catmaid::catmaid_login() is called. |
... | methods passed to catmaid::read.neurons.catmaid |
read.from | from where to read FAFB segmented skeletons to generate node count data |