[1]:
!pip install -r ../../../requirements.txt --quiet
!pip install ../../../ --quiet
Creating and Exploring VFBTerm Neuron Objects
We’ll start by creating a VFBTerm object using the vfb.term method.
[2]:
# Import the VFBConnect class
from vfb_connect import vfb
Welcome to the Virtual Fly Brain API
See the documentation at: https://virtualflybrain.org/docs/tutorials/apis/
Establishing connections to https://VirtualFlyBrain.org services...
Session Established!
Type vfb. and press tab to see available queries. You can run help against any query e.g. help(vfb.get_TermInfo)
[3]:
vfb_neuron = vfb.term('LPC1 (FlyEM-HB:1838269993)')
print(vfb_neuron)
Notice: No exact match found, but potential matches starting with 'LPC1 (FlyEM-HB': 'LPC1 (FlyEM-HB:1838269993)': 'VFB_jrchk011', 'LPC1 (FlyEM-HB:1808633332)': 'VFB_jrchk010', 'LPC1 (FlyEM-HB:1808284045)': 'VFB_jrchk013', 'LPC1 (FlyEM-HB:5813046242)': 'VFB_jrchk012', 'LPC1 (FlyEM-HB:5812999314)': 'VFB_jrchk00b', 'LPC1 (FlyEM-HB:1808965929)': 'VFB_jrchk00a', 'LPC1 (FlyEM-HB:1806535217)': 'VFB_jrchk00h', 'LPC1 (FlyEM-HB:5812997784)': 'VFB_jrchk00g', 'LPC1 (FlyEM-HB:5812993717)': 'VFB_jrchk00j', 'LPC1 (FlyEM-HB:1808620692)': 'VFB_jrchk00i', 'LPC1 (FlyEM-HB:5813039477)': 'VFB_jrchk00d', 'LPC1 (FlyEM-HB:1839314480)': 'VFB_jrchk00c', 'LPC1 (FlyEM-HB:1838266061)': 'VFB_jrchk00f', 'LPC1 (FlyEM-HB:1807930214)': 'VFB_jrchk00e', 'LPC1 (FlyEM-HB:5813038963)': 'VFB_jrchk000', 'LPC1 (FlyEM-HB:1681683226)': 'VFB_jrchk002', 'LPC1 (FlyEM-HB:5813034310)': 'VFB_jrchk001', 'LPC1 (FlyEM-HB:5813018236)': 'VFB_jrchk008', 'LPC1 (FlyEM-HB:1778613177)': 'VFB_jrchk007', 'LPC1 (FlyEM-HB:5813039475)': 'VFB_jrchk009', 'LPC1 (FlyEM-HB:5812995460)': 'VFB_jrchk004', 'LPC1 (FlyEM-HB:5813045475)': 'VFB_jrchk003', 'LPC1 (FlyEM-HB:5812998632)': 'VFB_jrchk006', 'LPC1 (FlyEM-HB:5813049879)': 'VFB_jrchk005', 'LPC1 (FlyEM-HB:1806885187)': 'VFB_jrchk00p', 'LPC1 (FlyEM-HB:1870694455)': 'VFB_jrchk00o', 'LPC1 (FlyEM-HB:1806535843)': 'VFB_jrchk00r', 'LPC1 (FlyEM-HB:1839659717)': 'VFB_jrchk00q', 'LPC1 (FlyEM-HB:5813038966)': 'VFB_jrchk00l', 'LPC1 (FlyEM-HB:5813038958)': 'VFB_jrchk00k', 'LPC1 (FlyEM-HB:1838274271)': 'VFB_jrchk00n', 'LPC1 (FlyEM-HB:5813061319)': 'VFB_jrchk00m', 'LPC1 (FlyEM-HB:5812998572)': 'VFB_jrchk00x', 'LPC1 (FlyEM-HB:1807584848)': 'VFB_jrchk00w', 'LPC1 (FlyEM-HB:1807235150)': 'VFB_jrchk00z', 'LPC1 (FlyEM-HB:1808279389)': 'VFB_jrchk00y', 'LPC1 (FlyEM-HB:1807238852)': 'VFB_jrchk00t', 'LPC1 (FlyEM-HB:1775513344)': 'VFB_jrchk00s', 'LPC1 (FlyEM-HB:1806880914)': 'VFB_jrchk00v', 'LPC1 (FlyEM-HB:1806535767)': 'VFB_jrchk00u', 'LPC1 (FlyEM-HB:1840004786)': 'VFB_jrchjzz0', 'LPC1 (FlyEM-HB:1808279428)': 'VFB_jrchjzz1', 'LPC1 (FlyEM-HB:1806185436)': 'VFB_jrchjzz8', 'LPC1 (FlyEM-HB:1807584852)': 'VFB_jrchjzz9', 'LPC1 (FlyEM-HB:1809320060)': 'VFB_jrchjzz6', 'LPC1 (FlyEM-HB:1807584851)': 'VFB_jrchjzz7', 'LPC1 (FlyEM-HB:1809320036)': 'VFB_jrchjzz4', 'LPC1 (FlyEM-HB:5812993718)': 'VFB_jrchjzz5', 'LPC1 (FlyEM-HB:1807239383)': 'VFB_jrchjzz2', 'LPC1 (FlyEM-HB:5812993605)': 'VFB_jrchjzz3', 'LPC1 (FlyEM-HB:5813039484)': 'VFB_jrchjzxz', 'LPC1 (FlyEM-HB:5812993719)': 'VFB_jrchjzyg', 'LPC1 (FlyEM-HB:1808279335)': 'VFB_jrchjzyh', 'LPC1 (FlyEM-HB:1806850696)': 'VFB_jrchjzye', 'LPC1 (FlyEM-HB:5812997786)': 'VFB_jrchjzyf', 'LPC1 (FlyEM-HB:1745168996)': 'VFB_jrchjzyc', 'LPC1 (FlyEM-HB:5812999239)': 'VFB_jrchjzyd', 'LPC1 (FlyEM-HB:1745518676)': 'VFB_jrchjzya', 'LPC1 (FlyEM-HB:1808624862)': 'VFB_jrchjzyb', 'LPC1 (FlyEM-HB:1434768400)': 'VFB_jrchjzy0', 'LPC1 (FlyEM-HB:1713788691)': 'VFB_jrchjzy7', 'LPC1 (FlyEM-HB:5812993604)': 'VFB_jrchjzy8', 'LPC1 (FlyEM-HB:1714134266)': 'VFB_jrchjzy5', 'LPC1 (FlyEM-HB:1745169277)': 'VFB_jrchjzy6', 'LPC1 (FlyEM-HB:1807234995)': 'VFB_jrchjzy3', 'LPC1 (FlyEM-HB:5812997949)': 'VFB_jrchjzy4', 'LPC1 (FlyEM-HB:1806893720)': 'VFB_jrchjzy1', 'LPC1 (FlyEM-HB:1714138427)': 'VFB_jrchjzy2', 'LPC1 (FlyEM-HB:1808624754)': 'VFB_jrchjzy9', 'LPC1 (FlyEM-HB:5812983613)': 'VFB_jrchjzzp', 'LPC1 (FlyEM-HB:5812997050)': 'VFB_jrchjzzq', 'LPC1 (FlyEM-HB:1842090544)': 'VFB_jrchjzzn', 'LPC1 (FlyEM-HB:1808624842)': 'VFB_jrchjzzo', 'LPC1 (FlyEM-HB:1776208262)': 'VFB_jrchjzzl', 'LPC1 (FlyEM-HB:5813038964)': 'VFB_jrchjzzm', 'LPC1 (FlyEM-HB:5813039480)': 'VFB_jrchjzzj', 'LPC1 (FlyEM-HB:1808284051)': 'VFB_jrchjzzk', 'LPC1 (FlyEM-HB:5813039499)': 'VFB_jrchjzzx', 'LPC1 (FlyEM-HB:1808279472)': 'VFB_jrchjzzy', 'LPC1 (FlyEM-HB:5812998640)': 'VFB_jrchjzzv', 'LPC1 (FlyEM-HB:1837920218)': 'VFB_jrchjzzw', 'LPC1 (FlyEM-HB:5812998639)': 'VFB_jrchjzzt', 'LPC1 (FlyEM-HB:1808629175)': 'VFB_jrchjzzu', 'LPC1 (FlyEM-HB:5813024289)': 'VFB_jrchjzzr', 'LPC1 (FlyEM-HB:1838969023)': 'VFB_jrchjzzs', 'LPC1 (FlyEM-HB:1714138479)': 'VFB_jrchjzzz', 'LPC1 (FlyEM-HB:5813039479)': 'VFB_jrchjzyo', 'LPC1 (FlyEM-HB:5813039483)': 'VFB_jrchjzyp', 'LPC1 (FlyEM-HB:5812998594)': 'VFB_jrchjzym', 'LPC1 (FlyEM-HB:1809319986)': 'VFB_jrchjzyn', 'LPC1 (FlyEM-HB:1806885454)': 'VFB_jrchjzyk', 'LPC1 (FlyEM-HB:1806885186)': 'VFB_jrchjzyl', 'LPC1 (FlyEM-HB:5813039476)': 'VFB_jrchjzyi', 'LPC1 (FlyEM-HB:5812987563)': 'VFB_jrchjzyj', 'LPC1 (FlyEM-HB:5812997130)': 'VFB_jrchjzyw', 'LPC1 (FlyEM-HB:5813078215)': 'VFB_jrchjzyx', 'LPC1 (FlyEM-HB:1806880698)': 'VFB_jrchjzyu', 'LPC1 (FlyEM-HB:5813038972)': 'VFB_jrchjzyv', 'LPC1 (FlyEM-HB:5813046239)': 'VFB_jrchjzys', 'LPC1 (FlyEM-HB:5813054867)': 'VFB_jrchjzyt', 'LPC1 (FlyEM-HB:1807243321)': 'VFB_jrchjzyq', 'LPC1 (FlyEM-HB:1805844441)': 'VFB_jrchjzyr', 'LPC1 (FlyEM-HB:5813039485)': 'VFB_jrchjzza', 'LPC1 (FlyEM-HB:1837902676)': 'VFB_jrchjzyy', 'LPC1 (FlyEM-HB:1807942965)': 'VFB_jrchjzyz', 'LPC1 (FlyEM-HB:5813046237)': 'VFB_jrchjzzh', 'LPC1 (FlyEM-HB:1839310335)': 'VFB_jrchjzzi', 'LPC1 (FlyEM-HB:1807592904)': 'VFB_jrchjzzf', 'LPC1 (FlyEM-HB:1808969927)': 'VFB_jrchjzzg', 'LPC1 (FlyEM-HB:1806526649)': 'VFB_jrchjzzd', 'LPC1 (FlyEM-HB:1808279458)': 'VFB_jrchjzze', 'LPC1 (FlyEM-HB:1775513203)': 'VFB_jrchjzzb', 'LPC1 (FlyEM-HB:5813046241)': 'VFB_jrchjzzc'
VFBTerm(term=Term(term=MinimalEntityInfo(name=LPC1, short_form=VFB_jrchk011), link=https://n2t.net/vfb:VFB_jrchk011))
[4]:
vfb_neuron.term.core.types
[4]:
['Entity',
'Adult',
'Anatomy',
'Cell',
'Cholinergic',
'Individual',
'Nervous_system',
'Neuron',
'Visual_system',
'has_image',
'has_neuron_connectivity',
'has_region_connectivity',
'FlyEM_HB',
'NBLAST',
'NBLASTexp',
'neuronbridge']
[5]:
print(vfb_neuron.similar_neurons_nblast)
[Score(score=0.81, method=NBLAST_score, term=LPC1), Score(score=0.73, method=NBLAST_score, term=LPC1), Score(score=0.71, method=NBLAST_score, term=LPC1), Score(score=0.7, method=NBLAST_score, term=LPC1), Score(score=0.7, method=NBLAST_score, term=LPC1), Score(score=0.7, method=NBLAST_score, term=LPC1), Score(score=0.69, method=NBLAST_score, term=LPC1), Score(score=0.68, method=NBLAST_score, term=LPC1), Score(score=0.66, method=NBLAST_score, term=LPC1), Score(score=0.66, method=NBLAST_score, term=LPC1), Score(score=0.66, method=NBLAST_score, term=LPC1), Score(score=0.64, method=NBLAST_score, term=LPC1), Score(score=0.63, method=NBLAST_score, term=LPC1), Score(score=0.63, method=NBLAST_score, term=LPC1), Score(score=0.63, method=NBLAST_score, term=LPC1), Score(score=0.63, method=NBLAST_score, term=LPC1), Score(score=0.63, method=NBLAST_score, term=LPC1), Score(score=0.62, method=NBLAST_score, term=LPC1), Score(score=0.61, method=NBLAST_score, term=LPC1), Score(score=0.61, method=NBLAST_score, term=LPC1), Score(score=0.52, method=NBLAST_score, term=fru-M-500007), Score(score=0.5, method=NBLAST_score, term=VGlut-F-400358), Score(score=0.49, method=NBLAST_score, term=VGlut-F-700361), Score(score=0.47, method=NBLAST_score, term=VGlut-F-600153), Score(score=0.46, method=NBLAST_score, term=VGlut-F-200179), Score(score=0.46, method=NBLAST_score, term=fru-F-600012), Score(score=0.45, method=NBLAST_score, term=fru-M-300177), Score(score=0.45, method=NBLAST_score, term=fru-M-200054), Score(score=0.45, method=NBLAST_score, term=fru-F-800033), Score(score=0.44, method=NBLAST_score, term=VGlut-F-400543), Score(score=0.44, method=NBLAST_score, term=fru-M-300284), Score(score=0.43, method=NBLAST_score, term=fru-M-500018), Score(score=0.43, method=NBLAST_score, term=fru-M-200338), Score(score=0.42, method=NBLAST_score, term=fru-F-500208), Score(score=0.42, method=NBLAST_score, term=fru-M-100111), Score(score=0.41, method=NBLAST_score, term=fru-F-300110), Score(score=0.41, method=NBLAST_score, term=VGlut-F-300353), Score(score=0.41, method=NBLAST_score, term=VGlut-F-500342), Score(score=0.4, method=NBLAST_score, term=fru-M-400050), Score(score=0.4, method=NBLAST_score, term=fru-M-300153), Score(score=0.4, method=NBLAST_score, term=VGlut-F-300281), Score(score=0.39, method=NBLAST_score, term=Cha-F-300004), Score(score=0.39, method=NBLAST_score, term=fru-F-300037), Score(score=0.38, method=NBLAST_score, term=Cha-F-000272), Score(score=0.38, method=NBLAST_score, term=VGlut-F-200328), Score(score=0.36, method=NBLAST_score, term=fru-M-700048), Score(score=0.35, method=NBLAST_score, term=Cha-F-200097), Score(score=0.35, method=NBLAST_score, term=fru-M-400162), Score(score=0.35, method=NBLAST_score, term=fru-M-400070), Score(score=0.34, method=NBLAST_score, term=fru-M-400134), Score(score=0.32, method=NBLAST_score, term=fru-M-400012), Score(score=0.32, method=NBLAST_score, term=VGlut-F-300276), Score(score=0.31, method=NBLAST_score, term=fru-M-000178), Score(score=0.31, method=NBLAST_score, term=fru-M-500184), Score(score=0.31, method=NBLAST_score, term=Gad1-F-100056), Score(score=0.31, method=NBLAST_score, term=VGlut-F-500073), Score(score=0.3, method=NBLAST_score, term=VGlut-F-200199), Score(score=0.3, method=NBLAST_score, term=fru-M-600005), Score(score=0.29, method=NBLAST_score, term=Cha-F-800043), Score(score=0.28, method=NBLAST_score, term=fru-F-400132), Score(score=0.28, method=NBLAST_score, term=VGlut-F-700604), Score(score=0.28, method=NBLAST_score, term=fru-M-600074), Score(score=0.28, method=NBLAST_score, term=VGlut-F-400153), Score(score=0.27, method=NBLAST_score, term=fru-F-300055), Score(score=0.27, method=NBLAST_score, term=Gad1-F-900013), Score(score=0.26, method=NBLAST_score, term=VS(LPTC)), Score(score=0.26, method=NBLAST_score, term=fru-F-200002), Score(score=0.26, method=NBLAST_score, term=5-HT1B-M-400004), Score(score=0.25, method=NBLAST_score, term=fru-F-000129), Score(score=0.25, method=NBLAST_score, term=VGlut-F-200124), Score(score=0.25, method=NBLAST_score, term=fru-F-000039)]
[6]:
print(vfb_neuron.potential_drivers_nblast)
[Score(score=0.27, method=NBLAST_score, term=SS02700)]
[7]:
print(vfb_neuron.potential_drivers_neuronbridge)
[Score(score=01468, method=neuronbridge_score, term=MB005B), Score(score=01286, method=neuronbridge_score, term=MB005B), Score(score=01280, method=neuronbridge_score, term=MB005B), Score(score=01096, method=neuronbridge_score, term=MB005B), Score(score=01051, method=neuronbridge_score, term=OL0047B), Score(score=00701, method=neuronbridge_score, term=OL0047B), Score(score=00656, method=neuronbridge_score, term=MB013B), Score(score=00652, method=neuronbridge_score, term=SS59911), Score(score=00615, method=neuronbridge_score, term=MB013B), Score(score=00615, method=neuronbridge_score, term=MB013B)]
[8]:
print(vfb_neuron.parents)
VFBTerms(terms=VFBTerms(terms=[VFBTerm(term=Term(term=MinimalEntityInfo(name=LPC1, short_form=FBbt_00111767), link=https://n2t.net/vfb:FBbt_00111767))]))
[9]:
vfb_neuron.show()
Loading thumbnail for LPC1
[10]:
upstream_partners = vfb_neuron.upstream_partners()
print(upstream_partners)
[Partner(weight=10, partner=PVLP011_R (FlyEM-HB:5813039148)), Partner(weight=10, partner=PLP249(SCB022)_R (FlyEM-HB:5813062698)), Partner(weight=5, partner=LPC1 (FlyEM-HB:1808624842)), Partner(weight=4, partner=LPC1 (FlyEM-HB:5813039479)), Partner(weight=4, partner=LPC1 (FlyEM-HB:5812998572)), Partner(weight=3, partner=LPC1 (FlyEM-HB:1808629175)), Partner(weight=3, partner=LPC1 (FlyEM-HB:1838266061)), Partner(weight=3, partner=LPC1 (FlyEM-HB:1808965929)), Partner(weight=3, partner=LPC1 (FlyEM-HB:5813034310)), Partner(weight=2, partner=PLP202_R (FlyEM-HB:5813022599)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1806885186)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1714134266)), Partner(weight=2, partner=LPC1 (FlyEM-HB:5812997786)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1806893720)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1808279458)), Partner(weight=2, partner=LPC1 (FlyEM-HB:5812993718)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1839314480)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1805844441)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1714138427)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812998594)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812997949)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1808620692)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5813039484)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1807592904)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5813038963)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1838969023)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812983613)), Partner(weight=1, partner=SAD013_R (FlyEM-HB:5813024035)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1807930214)), Partner(weight=1, partner=LLPC3 (FlyEM-HB:5813022935)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1807238852)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1837902676)), Partner(weight=1, partner=LPC2 (FlyEM-HB:2398215718)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812998639)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1809320060)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1806850696)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1806880698)), Partner(weight=1, partner=LLPC3 (FlyEM-HB:5812994421)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1807235150)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812999239))]
[11]:
downstream_partners = vfb_neuron.downstream_partners()
print(downstream_partners)
[Partner(weight=32, partner=PVLP011_R (FlyEM-HB:5813039148)), Partner(weight=21, partner=PLP018_R (FlyEM-HB:1535144397)), Partner(weight=18, partner=PLP163_R (FlyEM-HB:1572240664)), Partner(weight=8, partner=PLP018_R (FlyEM-HB:5813040309)), Partner(weight=7, partner=LPC1 (FlyEM-HB:1808620692)), Partner(weight=7, partner=LPC1 (FlyEM-HB:1808965929)), Partner(weight=6, partner=AVLP370_R (FlyEM-HB:1541964241)), Partner(weight=5, partner=LPC1 (FlyEM-HB:5812997786)), Partner(weight=5, partner=PLP012_R (FlyEM-HB:5813020388)), Partner(weight=4, partner=DNa07_R (FlyEM-HB:1627618361)), Partner(weight=4, partner=LAL136_b_R (FlyEM-HB:5813104190)), Partner(weight=4, partner=DNp11_R (FlyEM-HB:1281324958)), Partner(weight=4, partner=LPC1 (FlyEM-HB:5812998572)), Partner(weight=3, partner=VES009_R (FlyEM-HB:1140923511)), Partner(weight=3, partner=LPC1 (FlyEM-HB:1806893720)), Partner(weight=3, partner=LPC1 (FlyEM-HB:1806885186)), Partner(weight=3, partner=LPC1 (FlyEM-HB:1839314480)), Partner(weight=3, partner=LPC1 (FlyEM-HB:5812999239)), Partner(weight=2, partner=LPLC4_R (FlyEM-HB:1563126068)), Partner(weight=2, partner=LPC1 (FlyEM-HB:5812993718)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1808624862)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1806850696)), Partner(weight=2, partner=LPC1 (FlyEM-HB:5813039484)), Partner(weight=2, partner=PVLP130_R (FlyEM-HB:1601711357)), Partner(weight=2, partner=LPC1 (FlyEM-HB:5813039479)), Partner(weight=2, partner=PLP249(SCB022)_R (FlyEM-HB:5813062698)), Partner(weight=2, partner=PVLP150(SCB030)_R (FlyEM-HB:1385093648)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1838266061)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1807592904)), Partner(weight=2, partner=LPC1 (FlyEM-HB:1808629175)), Partner(weight=2, partner=LPC1 (FlyEM-HB:5813045475)), Partner(weight=1, partner=PLP029_R (FlyEM-HB:5813054141)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812998594)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812998639)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5813038958)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1837902676)), Partner(weight=1, partner=LLPC3 (FlyEM-HB:5812997184)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1808624842)), Partner(weight=1, partner=PS143_R (FlyEM-HB:1748666238)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1775513344)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1838969023)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5813038963)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812997949)), Partner(weight=1, partner=LPC2 (FlyEM-HB:2398215718)), Partner(weight=1, partner=LPLC1_R (FlyEM-HB:1469269528)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5812983613)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1778613177)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1808279458)), Partner(weight=1, partner=LPC1 (FlyEM-HB:5813034310)), Partner(weight=1, partner=PLP035_R (FlyEM-HB:1441978094)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1842090544)), Partner(weight=1, partner=LLPC3 (FlyEM-HB:5812998802)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1745518676)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1714134266)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1714138427)), Partner(weight=1, partner=LPLC1_R (FlyEM-HB:1407874177)), Partner(weight=1, partner=SMP584_R (FlyEM-HB:482754144)), Partner(weight=1, partner=LLPC3 (FlyEM-HB:5812998819)), Partner(weight=1, partner=PLP148_R (FlyEM-HB:1437613888)), Partner(weight=1, partner=LPC1 (FlyEM-HB:1434768400)), Partner(weight=1, partner=PVLP127_R (FlyEM-HB:1566178485))]
[12]:
vfb_neuron.plot_partners(partners=[p for p in downstream_partners if p.weight < 10 and p.weight > 5], template='JRC2018Unisex')
# By default the origin neuron is included and show in black.
# The weight parameter is the strength of the connection (# of synapses) between the origin neuron and the partner neuron.
# we can tune what connections are shown by limiting the weight of the connections e.g. [p for p in downstream_partners if p.weight < 10 and p.weight > 5]
# TODO Alpha represents strength of connection but doesn't appear to be displaying correctly
Plotting 3D representation of 5 items
Data type cannot be displayed: application/vnd.plotly.v1+json
[13]:
high_simiarity_neuron_scores = [neuron for neuron in vfb_neuron.similar_neurons_nblast if neuron.score > 0.7]
# We are also limiting the neurons to those with a score of greater than 0.7
vfb_neuron.plot_similar(similar=high_simiarity_neuron_scores, template='JRC2018Unisex')
Plotting 3D representation of 4 items
Data type cannot be displayed: application/vnd.plotly.v1+json
[14]:
from vfb_connect.schema.vfb_term import VFBTerms
high_simiarity_neurons = VFBTerms([neuron.term for neuron in high_simiarity_neuron_scores])
high_simiarity_neurons.plot3d_by_type()
# This will plot the similar neurons in 3D by type
# The type is the most specific parent type of the neuron
# TODO the legend_group is not displaying correctly
Enforcing the display template space as JRC2018Unisex from the first skeleton found. Specify a template to avoid this.
Plotting 3D representation of 3 items
Data type cannot be displayed: application/vnd.plotly.v1+json
[15]:
high_simiarity_neurons.show(template='JRC2018Unisex')
[16]:
# This is a quick way to show to show complex data before plotting in 3d etc.
VFBTerms([partner.partner for partner in downstream_partners]).show(transparent=False)
