vfb_nblast: Query vfb opencpu server to obtain pre-computed nblast scores

In jefferis/vfbr: R Package to Access the Virtual Fly Brain project API

Query vfb opencpu server to obtain pre-computed nblast scores

Description

Query vfb opencpu server to obtain pre-computed nblast scores

Usage

vfb_nblast(
  query,
  n = 50,
  target = c("FlyCircuit", "GMR-Gal4"),
  vfb_ids = NA,
  server = getOption("vfbr.server.r"),
  ...
)

Arguments

query	A single flycircuit identifier
n	The number of hits to return
target	The target data set to query
vfb_ids	Whether to expect and return VFB identifiers rather than the ids used in the original dataset. Default value vfb_ids=NA attempts to autodetect and return VFB ids.
server	The base url of the server
...	Additional arguments to be included in the POST

Value

a data.frame in descending score order with columns

• id Flycircuit Neuron name

• score NBLAST score

Examples

vfb_nblast('fru-M-200266')
# using a VFB id
vfb_nblast('VFB_00014755', n=10)


top10=vfb_nblast('fru-M-200266', target="GMR-Gal4", n = 10)
head(top10)

## Not run: 
library(nat.amira)
open_stack_viewer(getOption("vfbr.stack.downloads"), download_gmr_stacks(top10$id))

## End(Not run)

## Not run: 
# to use ocpu instance as an API
curl http://r.virtualflybrain.org/ocpu/library/vfbr/R/vfb_nblast/json \
  -d 'query="FruMARCM-M002262_seg001"'
# specify number of results to return
curl http://r.virtualflybrain.org/ocpu/library/vfbr/R/vfb_nblast/json \
  -d 'query="FruMARCM-M002262_seg001"&n=10'
# all results
curl http://r.virtualflybrain.org/ocpu/library/vfbr/R/vfb_nblast/json \
  -d 'query="FruMARCM-M002262_seg001"&n=0'
# with VFB id
curl http://r.virtualflybrain.org/ocpu/library/vfbr/R/vfb_nblast/json \
  -d 'query="VFB_00014755"&n=10'
# with VFB id, all results
curl http://r.virtualflybrain.org/ocpu/library/vfbr/R/vfb_nblast/json \
  -d 'query="VFB_00014755"&n=0'

## End(Not run)

jefferis/vfbr documentation built on Sept. 24, 2024, 1:37 p.m.