to setup requirements:
pip install --upgrade vfbquery📖 Full documentation: vfbquery.readthedocs.io — the
HTTP API, the /combine set-algebra reference, the lightweight vfbquery-client package, and the
query catalogue, all rendered and cross-linked. This README is the quick start.
🧪 Adding or changing a test? Read TESTING.md first. The suite runs live queries against the VFB backend, so tests must assert real content (never suppress an empty result, never swallow errors, always verify fixtures return data). Those rules exist because a batch of silently-passing tests was found and fixed — the doc is how we keep them fixed.
VFBquery includes intelligent SOLR-based caching for optimal performance:
- Instant Results for repeated queries
- NBLAST similarity queries: 10+ seconds → <0.1 seconds (cached)
- Zero configuration - works automatically
- Persistent cache survives restarts
- 3-month TTL matches VFB_connect behavior
import vfbquery as vfb
# First query builds cache (~1-2 seconds)
result1 = vfb.get_term_info('FBbt_00003748')
# Subsequent queries served from cache (<0.1 seconds)
result2 = vfb.get_term_info('FBbt_00003748') # 54,000x faster!
# Similarity queries also cached
similar = vfb.get_similar_neurons('VFB_jrchk00s') # Fast after first run📚 See CACHING.md for cache configuration, the VFBQUERY_CACHE_ENABLED
bypass (used by the tests), and version-based invalidation; and
RELEASING.md for how the single-source version (_version.py) is
bumped from the release tag.
To get term info for a term: get_term_info(ID)
e.g.
import vfbquery as vfbClass example:
vfb.get_term_info('FBbt_00003748', force_refresh=True){
"Name": "medulla",
"Id": "FBbt_00003748",
"SuperTypes": [
"Entity",
"Class",
"Adult",
"Anatomy",
"Nervous_system",
"Synaptic_neuropil",
"Synaptic_neuropil_domain",
"Visual_system"
],
"Meta": {
"Name": "[medulla](FBbt_00003748)",
"Description": "The second optic neuropil, sandwiched between the lamina and the lobula complex. It is divided into 10 layers: 1-6 make up the outer (distal) medulla, the seventh (or serpentine) layer exhibits a distinct architecture and layers 8-10 make up the inner (proximal) medulla (Ito et al., 2014).",
"Comment": "Nern et al. (2025) - doi:10.1038/s41586-025-08746-0 say distal is M1-5 and M6-7 is central medulla.",
"Types": "[anterior ectoderm derivative](FBbt_00025991); [synaptic neuropil domain](FBbt_00040007)",
"Relationships": "[develops from](RO_0002202): [medulla anlage](FBbt_00001935); [is part of](BFO_0000050): [adult optic lobe](FBbt_00003701)"
},
"Tags": [
"Adult",
"Nervous_system",
"Synaptic_neuropil_domain",
"Visual_system"
],
"Queries": [
{
"query": "ListAllAvailableImages",
"label": "List all available images of medulla",
"function": "get_instances",
"takes": {
"short_form": {
"$and": [
"Class",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Gross Types",
"type": "tags",
"order": 3
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "VFB_00102107",
"label": "[ME on JRC2018Unisex adult brain](VFB_00102107)",
"tags": "Nervous_system|Adult|Visual_system|Synaptic_neuropil_domain",
"thumbnail": "[![ME on JRC2018Unisex adult brain aligned to JRC2018U](https://www.virtualflybrain.org/data/VFB/i/0010/2107/VFB_00101567/thumbnail.png \"ME on JRC2018Unisex adult brain aligned to JRC2018U\")](VFB_00101567,VFB_00102107)"
},
{
"id": "VFB_00101385",
"label": "[ME(R) on JRC_FlyEM_Hemibrain](VFB_00101385)",
"tags": "Nervous_system|Adult|Visual_system|Synaptic_neuropil_domain",
"thumbnail": "[![ME(R) on JRC_FlyEM_Hemibrain aligned to JRCFIB2018Fum](https://www.virtualflybrain.org/data/VFB/i/0010/1385/VFB_00101384/thumbnail.png \"ME(R) on JRC_FlyEM_Hemibrain aligned to JRCFIB2018Fum\")](VFB_00101384,VFB_00101385)"
},
{
"id": "VFB_00030810",
"label": "[medulla on adult brain template Ito2014](VFB_00030810)",
"tags": "Nervous_system|Visual_system|Adult|Synaptic_neuropil_domain",
"thumbnail": "[![medulla on adult brain template Ito2014 aligned to adult brain template Ito2014](https://www.virtualflybrain.org/data/VFB/i/0003/0810/VFB_00030786/thumbnail.png \"medulla on adult brain template Ito2014 aligned to adult brain template Ito2014\")](VFB_00030786,VFB_00030810)"
},
{
"id": "VFB_00030624",
"label": "[medulla on adult brain template JFRC2](VFB_00030624)",
"tags": "Nervous_system|Visual_system|Adult|Synaptic_neuropil_domain",
"thumbnail": "[![medulla on adult brain template JFRC2 aligned to JFRC2](https://www.virtualflybrain.org/data/VFB/i/0003/0624/VFB_00017894/thumbnail.png \"medulla on adult brain template JFRC2 aligned to JFRC2\")](VFB_00017894,VFB_00030624)"
}
]
},
"output_format": "table",
"count": 4
},
{
"query": "NeuronsPartHere",
"label": "Neurons with some part in medulla",
"function": "get_neurons_with_part_in",
"takes": {
"short_form": {
"$and": [
"Class",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_20011363",
"label": "[Cm10](FBbt_20011363)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011363)"
},
{
"id": "FBbt_20011364",
"label": "[Cm15](FBbt_20011364)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011364)"
},
{
"id": "FBbt_20011365",
"label": "[Cm16](FBbt_20011365)",
"tags": "Adult|Glutamatergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011365)"
},
{
"id": "FBbt_20011366",
"label": "[Cm17](FBbt_20011366)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011366)"
},
{
"id": "FBbt_20011362",
"label": "[Cm1](FBbt_20011362)",
"tags": "Adult|Cholinergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011362)"
}
]
},
"output_format": "table",
"count": 472
},
{
"query": "NeuronsSynaptic",
"label": "Neurons with synaptic terminals in medulla",
"function": "get_neurons_with_synapses_in",
"takes": {
"short_form": {
"$and": [
"Class",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_20011363",
"label": "[Cm10](FBbt_20011363)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011363)"
},
{
"id": "FBbt_20011364",
"label": "[Cm15](FBbt_20011364)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011364)"
},
{
"id": "FBbt_20011365",
"label": "[Cm16](FBbt_20011365)",
"tags": "Adult|Glutamatergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011365)"
},
{
"id": "FBbt_20011366",
"label": "[Cm17](FBbt_20011366)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011366)"
},
{
"id": "FBbt_20011362",
"label": "[Cm1](FBbt_20011362)",
"tags": "Adult|Cholinergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011362)"
}
]
},
"output_format": "table",
"count": 465
},
{
"query": "NeuronsPresynapticHere",
"label": "Neurons with presynaptic terminals in medulla",
"function": "get_neurons_with_presynaptic_terminals_in",
"takes": {
"short_form": {
"$and": [
"Class",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_20011363",
"label": "[Cm10](FBbt_20011363)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011363)"
},
{
"id": "FBbt_20011364",
"label": "[Cm15](FBbt_20011364)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011364)"
},
{
"id": "FBbt_20011365",
"label": "[Cm16](FBbt_20011365)",
"tags": "Adult|Glutamatergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011365)"
},
{
"id": "FBbt_20011366",
"label": "[Cm17](FBbt_20011366)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011366)"
},
{
"id": "FBbt_20011362",
"label": "[Cm1](FBbt_20011362)",
"tags": "Adult|Cholinergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011362)"
}
]
},
"output_format": "table",
"count": 253
},
{
"query": "NeuronsPostsynapticHere",
"label": "Neurons with postsynaptic terminals in medulla",
"function": "get_neurons_with_postsynaptic_terminals_in",
"takes": {
"short_form": {
"$and": [
"Class",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_20011363",
"label": "[Cm10](FBbt_20011363)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011363)"
},
{
"id": "FBbt_20011364",
"label": "[Cm15](FBbt_20011364)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011364)"
},
{
"id": "FBbt_20011365",
"label": "[Cm16](FBbt_20011365)",
"tags": "Adult|Glutamatergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011365)"
},
{
"id": "FBbt_20011366",
"label": "[Cm17](FBbt_20011366)",
"tags": "Adult|GABAergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011366)"
},
{
"id": "FBbt_20011362",
"label": "[Cm1](FBbt_20011362)",
"tags": "Adult|Cholinergic|Nervous_system|Visual_system",
"thumbnail": "[](FBbt_20011362)"
}
]
},
"output_format": "table",
"count": 331
},
{
"query": "PartsOf",
"label": "Parts of medulla",
"function": "get_parts_of",
"takes": {
"short_form": {
"$and": [
"Class"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_00003750",
"label": "[medulla layer M1](FBbt_00003750)",
"tags": "Adult|Nervous_system|Synaptic_neuropil_subdomain|Visual_system",
"thumbnail": ""
},
{
"id": "FBbt_00003753",
"label": "[medulla layer M4](FBbt_00003753)",
"tags": "Adult|Nervous_system|Synaptic_neuropil_subdomain|Visual_system",
"thumbnail": ""
},
{
"id": "FBbt_00003754",
"label": "[medulla layer M5](FBbt_00003754)",
"tags": "Adult|Nervous_system|Synaptic_neuropil_subdomain|Visual_system",
"thumbnail": ""
},
{
"id": "FBbt_00003758",
"label": "[medulla layer M8](FBbt_00003758)",
"tags": "Adult|Nervous_system|Synaptic_neuropil_subdomain|Visual_system",
"thumbnail": ""
},
{
"id": "FBbt_00003759",
"label": "[medulla layer M9](FBbt_00003759)",
"tags": "Adult|Nervous_system|Synaptic_neuropil_subdomain|Visual_system",
"thumbnail": ""
}
]
},
"output_format": "table",
"count": 28
},
{
"query": "SubclassesOf",
"label": "Subclasses of medulla",
"function": "get_subclasses_of",
"takes": {
"short_form": {
"$and": [
"Class"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
}
},
"output_format": "table",
"count": 0
},
{
"query": "TractsNervesInnervatingHere",
"label": "Tracts/nerves innervating medulla",
"function": "get_tracts_nerves_innervating_here",
"takes": {
"short_form": {
"$or": [
{
"$and": [
"Class",
"Synaptic_neuropil"
]
},
{
"$and": [
"Class",
"Synaptic_neuropil_domain"
]
}
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_00005810",
"label": "[first optic chiasma](FBbt_00005810)",
"tags": "Adult|Nervous_system|Neuron_projection_bundle|Visual_system",
"thumbnail": ""
},
{
"id": "FBbt_00007427",
"label": "[posterior optic commissure](FBbt_00007427)",
"tags": "Adult|Nervous_system|Neuron_projection_bundle",
"thumbnail": "[](FBbt_00007427)"
},
{
"id": "FBbt_00003922",
"label": "[second optic chiasma](FBbt_00003922)",
"tags": "Adult|Nervous_system|Neuron_projection_bundle|Visual_system",
"thumbnail": ""
}
]
},
"output_format": "table",
"count": 3
},
{
"query": "LineageClonesIn",
"label": "Lineage clones found in medulla",
"function": "get_lineage_clones_in",
"takes": {
"short_form": {
"$and": [
"Class",
"Synaptic_neuropil"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "FBbt_00050019",
"label": "[adult DM1 lineage clone](FBbt_00050019)",
"tags": "Adult|Clone|lineage_DPMm1",
"thumbnail": "[](FBbt_00050019)"
},
{
"id": "FBbt_00050143",
"label": "[adult DM6 lineage clone](FBbt_00050143)",
"tags": "Adult|Clone|lineage_CM3",
"thumbnail": "[](FBbt_00050143)"
},
{
"id": "FBbt_00050167",
"label": "[adult LALv1 lineage clone](FBbt_00050167)",
"tags": "Adult|Clone|lineage_BAmv1",
"thumbnail": "[](FBbt_00050167)"
},
{
"id": "FBbt_00050051",
"label": "[adult VESa2 lineage clone](FBbt_00050051)",
"tags": "Adult|Clone|lineage_BAlp1",
"thumbnail": "[](FBbt_00050051)"
},
{
"id": "FBbt_00050013",
"label": "[adult VPNl&d1 lineage clone](FBbt_00050013)",
"tags": "Adult|Clone",
"thumbnail": "[](FBbt_00050013)"
}
]
},
"output_format": "table",
"count": 7
},
{
"query": "ImagesNeurons",
"label": "Images of neurons with some part in medulla",
"function": "get_images_neurons",
"takes": {
"short_form": {
"$or": [
{
"$and": [
"Class",
"Synaptic_neuropil"
]
},
{
"$and": [
"Class",
"Synaptic_neuropil_domain"
]
}
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"label",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"label": {
"title": "Name",
"type": "markdown",
"order": 0,
"sort": {
"0": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "VFB_fw113160",
"label": "[FlyWire:720575940614228963](VFB_fw113160)",
"tags": [
"Adult",
"Cholinergic",
"Glutamatergic",
"Nervous_system",
"Visual_system",
"secondary_neuron"
],
"thumbnail": "[](VFB_00101567,VFB_fw113160)"
},
{
"id": "VFB_fw113163",
"label": "[FlyWire:720575940617552345](VFB_fw113163)",
"tags": [
"Adult",
"Glutamatergic",
"Nervous_system",
"Visual_system"
],
"thumbnail": "[](VFB_00101567,VFB_fw113163)"
},
{
"id": "VFB_fw113161",
"label": "[FlyWire:720575940620899019](VFB_fw113161)",
"tags": [
"Adult",
"Cholinergic",
"Nervous_system",
"Visual_system"
],
"thumbnail": "[](VFB_00101567,VFB_fw113161)"
},
{
"id": "VFB_fw113162",
"label": "[FlyWire:720575940627258493](VFB_fw113162)",
"tags": [
"Adult",
"Cholinergic",
"Nervous_system",
"Visual_system"
],
"thumbnail": "[](VFB_00101567,VFB_fw113162)"
},
{
"id": "VFB_fw113167",
"label": "[FlyWire:720575940628422216](VFB_fw113167)",
"tags": [
"Adult",
"Glutamatergic",
"Nervous_system",
"Visual_system"
],
"thumbnail": "[](VFB_00101567,VFB_fw113167)"
}
]
},
"output_format": "table",
"count": 119989
},
{
"query": "ExpressionOverlapsHere",
"label": "Expression patterns overlapping medulla",
"function": "get_expression_overlaps_here",
"takes": {
"short_form": {
"$and": [
"Class",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"name",
"tags",
"pubs"
],
"preview_results": {
"headers": {
"id": {
"title": "ID",
"type": "selection_id",
"order": -1
},
"name": {
"title": "Expression Pattern",
"type": "markdown",
"order": 0
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 1
},
"pubs": {
"title": "Publications",
"type": "metadata",
"order": 2
}
},
"rows": [
{
"id": "VFBexp_FBti0182065",
"name": "[Mi{GT-GAL4}DIP-\u03b2[MI01971-GAL4] expression pattern](VFBexp_FBti0182065)",
"tags": "Expression_pattern",
"pubs": [
{
"core": {
"iri": "http://flybase.org/reports/FBrf0230454",
"symbol": "",
"types": [
"Entity",
"Individual",
"pub"
],
"short_form": "FBrf0230454",
"label": "Carrillo et al., 2015, Cell 163(7): 1770--1782"
},
"FlyBase": "FBrf0230454",
"PubMed": "26687361",
"DOI": "10.1016/j.cell.2015.11.022"
}
]
},
{
"id": "VFBexp_FBti0145260",
"name": "[Mi{MIC}dpr10[MI03557] expression pattern](VFBexp_FBti0145260)",
"tags": "Expression_pattern",
"pubs": [
{
"core": {
"iri": "http://flybase.org/reports/FBrf0230454",
"symbol": "",
"types": [
"Entity",
"Individual",
"pub"
],
"short_form": "FBrf0230454",
"label": "Carrillo et al., 2015, Cell 163(7): 1770--1782"
},
"FlyBase": "FBrf0230454",
"PubMed": "26687361",
"DOI": "10.1016/j.cell.2015.11.022"
}
]
},
{
"id": "VFBexp_FBti0143547",
"name": "[PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern](VFBexp_FBti0143547)",
"tags": "Expression_pattern",
"pubs": [
{
"core": {
"iri": "http://flybase.org/reports/FBrf0215202",
"symbol": "",
"types": [
"Entity",
"Individual",
"pub"
],
"short_form": "FBrf0215202",
"label": "Knowles-Barley, 2011.8.24, BrainTrap expression curation."
},
"FlyBase": "FBrf0215202",
"PubMed": "",
"DOI": ""
}
]
},
{
"id": "VFBexp_FBti0143533",
"name": "[PBac{544.SVS-1}B4[CPTI100035] expression pattern](VFBexp_FBti0143533)",
"tags": "Expression_pattern",
"pubs": [
{
"core": {
"iri": "http://flybase.org/reports/FBrf0215202",
"symbol": "",
"types": [
"Entity",
"Individual",
"pub"
],
"short_form": "FBrf0215202",
"label": "Knowles-Barley, 2011.8.24, BrainTrap expression curation."
},
"FlyBase": "FBrf0215202",
"PubMed": "",
"DOI": ""
}
]
},
{
"id": "VFBexp_FBti0143524",
"name": "[PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern](VFBexp_FBti0143524)",
"tags": "Expression_pattern",
"pubs": [
{
"core": {
"iri": "http://flybase.org/reports/FBrf0215202",
"symbol": "",
"types": [
"Entity",
"Individual",
"pub"
],
"short_form": "FBrf0215202",
"label": "Knowles-Barley, 2011.8.24, BrainTrap expression curation."
},
"FlyBase": "FBrf0215202",
"PubMed": "",
"DOI": ""
}
]
}
]
},
"output_format": "table",
"count": 2339
},
{
"query": "TransgeneExpressionHere",
"label": "Transgene expression in medulla",
"function": "get_transgene_expression_here",
"takes": {
"short_form": {
"$and": [
"Class",
"Nervous_system",
"Anatomy"
]
},
"default": {
"short_form": "FBbt_00003748"
}
},
"preview": 5,
"preview_columns": [
"id",
"name",
"tags"
],
"preview_results": {
"headers": {
"id": {
"title": "ID",
"type": "selection_id",
"order": -1
},
"name": {
"title": "Expression Pattern",
"type": "markdown",
"order": 0
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 1
}
},
"rows": [
{
"id": "VFBexp_FBti0182065",
"name": "[Mi{GT-GAL4}DIP-\u03b2[MI01971-GAL4] expression pattern](VFBexp_FBti0182065)",
"tags": "Expression_pattern"
},
{
"id": "VFBexp_FBti0145260",
"name": "[Mi{MIC}dpr10[MI03557] expression pattern](VFBexp_FBti0145260)",
"tags": "Expression_pattern"
},
{
"id": "VFBexp_FBti0143547",
"name": "[PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern](VFBexp_FBti0143547)",
"tags": "Expression_pattern"
},
{
"id": "VFBexp_FBti0143533",
"name": "[PBac{544.SVS-1}B4[CPTI100035] expression pattern](VFBexp_FBti0143533)",
"tags": "Expression_pattern"
},
{
"id": "VFBexp_FBti0143524",
"name": "[PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern](VFBexp_FBti0143524)",
"tags": "Expression_pattern"
}
]
},
"output_format": "table",
"count": 2339
}
],
"IsIndividual": False,
"IsClass": True,
"Examples": {
"VFB_00101384": [
{
"id": "VFB_00101385",
"label": "ME(R) on JRC_FlyEM_Hemibrain",
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/1385/VFB_00101384/thumbnail.png",
"thumbnail_transparent": "https://www.virtualflybrain.org/data/VFB/i/0010/1385/VFB_00101384/thumbnailT.png",
"nrrd": "https://www.virtualflybrain.org/data/VFB/i/0010/1385/VFB_00101384/volume.nrrd",
"wlz": "https://www.virtualflybrain.org/data/VFB/i/0010/1385/VFB_00101384/volume.wlz",
"obj": "https://www.virtualflybrain.org/data/VFB/i/0010/1385/VFB_00101384/volume_man.obj"
}
],
"VFB_00101567": [
{
"id": "VFB_00102107",
"label": "ME on JRC2018Unisex adult brain",
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2107/VFB_00101567/thumbnail.png",
"thumbnail_transparent": "https://www.virtualflybrain.org/data/VFB/i/0010/2107/VFB_00101567/thumbnailT.png",
"nrrd": "https://www.virtualflybrain.org/data/VFB/i/0010/2107/VFB_00101567/volume.nrrd",
"wlz": "https://www.virtualflybrain.org/data/VFB/i/0010/2107/VFB_00101567/volume.wlz",
"obj": "https://www.virtualflybrain.org/data/VFB/i/0010/2107/VFB_00101567/volume_man.obj"
}
],
"VFB_00017894": [
{
"id": "VFB_00030624",
"label": "medulla on adult brain template JFRC2",
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0003/0624/VFB_00017894/thumbnail.png",
"thumbnail_transparent": "https://www.virtualflybrain.org/data/VFB/i/0003/0624/VFB_00017894/thumbnailT.png",
"nrrd": "https://www.virtualflybrain.org/data/VFB/i/0003/0624/VFB_00017894/volume.nrrd",
"wlz": "https://www.virtualflybrain.org/data/VFB/i/0003/0624/VFB_00017894/volume.wlz",
"obj": "https://www.virtualflybrain.org/data/VFB/i/0003/0624/VFB_00017894/volume_man.obj"
}
],
"VFB_00030786": [
{
"id": "VFB_00030810",
"label": "medulla on adult brain template Ito2014",
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0003/0810/VFB_00030786/thumbnail.png",
"thumbnail_transparent": "https://www.virtualflybrain.org/data/VFB/i/0003/0810/VFB_00030786/thumbnailT.png",
"nrrd": "https://www.virtualflybrain.org/data/VFB/i/0003/0810/VFB_00030786/volume.nrrd",
"wlz": "https://www.virtualflybrain.org/data/VFB/i/0003/0810/VFB_00030786/volume.wlz",
"obj": "https://www.virtualflybrain.org/data/VFB/i/0003/0810/VFB_00030786/volume_man.obj"
}
]
},
"IsTemplate": False,
"Synonyms": [
{
"label": "ME",
"scope": "has_exact_synonym",
"type": "",
"publication": "[Ito et al., 2014](FBrf0224194)"
},
{
"label": "Med",
"scope": "has_exact_synonym",
"type": "",
"publication": "[Chiang et al., 2011](FBrf0212704)"
},
{
"label": "optic medulla",
"scope": "has_exact_synonym",
"type": "",
"publication": "[Venkatesh and Shyamala, 2010](FBrf0212889)"
},
{
"label": "m",
"scope": "has_related_synonym",
"type": "",
"publication": ""
}
]
}Individual example:
vfb.get_term_info('VFB_00000001'){
"Name": "fru-M-200266",
"Id": "VFB_00000001",
"SuperTypes": [
"Entity",
"Individual",
"VFB",
"Neuron",
"Adult",
"Anatomy",
"Cell",
"Expression_pattern_fragment",
"Nervous_system",
"has_image",
"lineage_CM3",
"lineage_DM6",
"FlyCircuit",
"NBLAST"
],
"Meta": {
"Name": "[fru-M-200266](VFB_00000001)",
"Description": "",
"Comment": "OutAge: Adult 5~15 days",
"Types": "[adult DM6 lineage neuron](FBbt_00050144); [expression pattern fragment](VFBext_0000004)",
"Relationships": "[expresses](RO_0002292): [Scer\\GAL4%5Bfru.P1.D%5D](FBal0276838); [is part of](BFO_0000050): [Scer\\GAL4%5Bfru.P1.D%5D expression pattern](VFBexp_FBal0276838), [adult brain](FBbt_00003624), [male organism](FBbt_00007004); [overlaps](RO_0002131): [adult antennal lobe](FBbt_00007401), [adult crepine](FBbt_00045037), [adult lateral accessory lobe](FBbt_00003681), [superior posterior slope](FBbt_00045040), [vest](FBbt_00040041)"
},
"Tags": [
"Adult",
"Expression_pattern_fragment",
"Neuron",
"lineage_CM3"
],
"Technique": [
"confocal microscopy"
],
"Queries": [
{
"query": "SimilarMorphologyTo",
"label": "Find similar neurons to fru-M-200266",
"function": "get_similar_neurons",
"takes": {
"short_form": {
"$and": [
"Individual",
"Neuron"
]
},
"default": {
"neuron": "VFB_00000001",
"similarity_score": "NBLAST_score"
}
},
"preview": 5,
"preview_columns": [
"id",
"score",
"name",
"tags",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "Add",
"type": "selection_id",
"order": -1
},
"score": {
"title": "Score",
"type": "numeric",
"order": 1,
"sort": {
"0": "Desc"
}
},
"name": {
"title": "Name",
"type": "markdown",
"order": 1,
"sort": {
"1": "Asc"
}
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 2
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 9
}
},
"rows": [
{
"id": "VFB_00000333",
"score": "0.61",
"name": "[fru-M-000204](VFB_00000333)",
"tags": "Expression_pattern_fragment|Neuron|Adult|lineage_CM3",
"thumbnail": "[![fru-M-000204 aligned to JFRC2](https://www.virtualflybrain.org/data/VFB/i/0000/0333/VFB_00017894/thumbnail.png \"fru-M-000204 aligned to JFRC2\")](VFB_00017894,VFB_00000333)"
},
{
"id": "VFB_00000333",
"score": "0.61",
"name": "[fru-M-000204](VFB_00000333)",
"tags": "Expression_pattern_fragment|Neuron|Adult|lineage_CM3",
"thumbnail": "[![fru-M-000204 aligned to JRC2018U](https://www.virtualflybrain.org/data/VFB/i/0000/0333/VFB_00101567/thumbnail.png \"fru-M-000204 aligned to JRC2018U\")](VFB_00101567,VFB_00000333)"
},
{
"id": "VFB_00002439",
"score": "0.6",
"name": "[fru-M-900020](VFB_00002439)",
"tags": "Expression_pattern_fragment|Neuron|Adult|lineage_CM3",
"thumbnail": "[![fru-M-900020 aligned to JRC2018U](https://www.virtualflybrain.org/data/VFB/i/0000/2439/VFB_00101567/thumbnail.png \"fru-M-900020 aligned to JRC2018U\")](VFB_00101567,VFB_00002439)"
},
{
"id": "VFB_00002439",
"score": "0.6",
"name": "[fru-M-900020](VFB_00002439)",
"tags": "Expression_pattern_fragment|Neuron|Adult|lineage_CM3",
"thumbnail": "[![fru-M-900020 aligned to JFRC2](https://www.virtualflybrain.org/data/VFB/i/0000/2439/VFB_00017894/thumbnail.png \"fru-M-900020 aligned to JFRC2\")](VFB_00017894,VFB_00002439)"
},
{
"id": "VFB_00000845",
"score": "0.59",
"name": "[fru-M-100191](VFB_00000845)",
"tags": "Expression_pattern_fragment|Neuron|Adult|lineage_CM3",
"thumbnail": "[![fru-M-100191 aligned to JRC2018U](https://www.virtualflybrain.org/data/VFB/i/0000/0845/VFB_00101567/thumbnail.png \"fru-M-100191 aligned to JRC2018U\")](VFB_00101567,VFB_00000845)"
}
]
},
"output_format": "table",
"count": 60
}
],
"IsIndividual": true,
"Images": {
"VFB_00017894": [
{
"id": "VFB_00000001",
"label": "fru-M-200266",
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00017894/thumbnail.png",
"thumbnail_transparent": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00017894/thumbnailT.png",
"nrrd": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00017894/volume.nrrd",
"wlz": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00017894/volume.wlz",
"obj": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00017894/volume.obj",
"swc": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00017894/volume.swc"
}
],
"VFB_00101567": [
{
"id": "VFB_00000001",
"label": "fru-M-200266",
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00101567/thumbnail.png",
"thumbnail_transparent": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00101567/thumbnailT.png",
"nrrd": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00101567/volume.nrrd",
"wlz": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00101567/volume.wlz",
"obj": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00101567/volume.obj",
"swc": "https://www.virtualflybrain.org/data/VFB/i/0000/0001/VFB_00101567/volume.swc"
}
]
},
"IsClass": false,
"Examples": {},
"IsTemplate": false,
"Domains": {},
"Licenses": {
"0": {
"iri": "http://virtualflybrain.org/reports/VFBlicense_FlyCircuit_License",
"short_form": "VFBlicense_FlyCircuit_License",
"label": "FlyCircuit License",
"icon": "",
"source": "FlyCircuit 1.0 - single neurons (Chiang2010)",
"source_iri": "http://virtualflybrain.org/reports/Chiang2010"
}
},
"Publications": [],
"Synonyms": []
}Template example:
vfb.get_term_info('VFB_00101567'){
"Name": "JRC2018U",
"Id": "VFB_00101567",
"SuperTypes": [
"Entity",
"Individual",
"VFB",
"Adult",
"Anatomy",
"Nervous_system",
"Template",
"has_image"
],
"Meta": {
"Name": "[JRC2018Unisex](VFB_00101567)",
"Symbol": "[JRC2018U](VFB_00101567)",
"Description": "Janelia 2018 unisex, averaged adult brain template",
"Comment": "",
"Types": "[adult brain](FBbt_00003624)"
},
"Tags": [
"Adult",
"Nervous_system"
],
"Queries": [
{
"query": "PaintedDomains",
"label": "Painted domains for JRC2018U",
"function": "get_painted_domains",
"takes": {
"short_form": {
"$and": [
"Template",
"Individual"
]
},
"default": {
"short_form": "VFB_00101567"
}
},
"preview": 10,
"preview_columns": [
"id",
"name",
"type",
"thumbnail"
],
"preview_results": {
"headers": {
"id": {
"title": "ID",
"type": "selection_id",
"order": -1
},
"name": {
"title": "Domain",
"type": "markdown",
"order": 0
},
"type": {
"title": "Type",
"type": "text",
"order": 1
},
"thumbnail": {
"title": "Thumbnail",
"type": "markdown",
"order": 2
}
},
"rows": [
{
"id": "VFB_00102274",
"name": "[FLA on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102274)",
"type": [
"flange"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2274/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102218",
"name": "[IPS on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102218)",
"type": [
"inferior posterior slope"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2218/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102214",
"name": "[GOR on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102214)",
"type": [
"gorget"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2214/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102212",
"name": "[VES on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102212)",
"type": [
"vest"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2212/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102201",
"name": "[AL on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102201)",
"type": [
"adult antennal lobe"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2201/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102185",
"name": "[IB on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102185)",
"type": [
"inferior bridge"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2185/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102176",
"name": "[SCL on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102176)",
"type": [
"superior clamp"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2176/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102170",
"name": "[SMP on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102170)",
"type": [
"superior medial protocerebrum"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2170/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102164",
"name": "[SIP on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102164)",
"type": [
"superior intermediate protocerebrum"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2164/VFB_00101567//thumbnailT.png"
},
{
"id": "VFB_00102110",
"name": "[LOP on JRC2018Unisex adult brain](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_00102110)",
"type": [
"lobula plate"
],
"thumbnail": "https://www.virtualflybrain.org/data/VFB/i/0010/2110/VFB_00101567//thumbnailT.png"
}
]
},
"output_format": "table",
"count": 46
},
{
"query": "AllAlignedImages",
"label": "All images aligned to JRC2018U",
"function": "get_all_aligned_images",
"takes": {
"short_form": {
"$and": [
"Template",
"Individual"
]
},
"default": {
"short_form": "VFB_00101567"
}
},
"preview": 10,
"preview_columns": [
"id",
"name",
"tags",
"type"
],
"preview_results": {
"headers": {
"id": {
"title": "ID",
"type": "selection_id",
"order": -1
},
"name": {
"title": "Image",
"type": "markdown",
"order": 0
},
"tags": {
"title": "Tags",
"type": "tags",
"order": 1
},
"type": {
"title": "Type",
"type": "text",
"order": 2
}
},
"rows": [
{
"id": "VFB_fw137243",
"name": "[FlyWire:720575940627896445](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_fw137243)",
"tags": "secondary_neuron|Nervous_system|GABAergic|Adult|Visual_system|Cholinergic",
"type": "transmedullary neuron Tm4"
},
{
"id": "VFB_fw040027",
"name": "[FlyWire:720575940620257750](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_fw040027)",
"tags": "Nervous_system|Adult|Cholinergic",
"type": "adult ascending neuron"
},
{
"id": "VFB_fw040027",
"name": "[FlyWire:720575940620257750](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?id=VFB_fw040027)",
"tags": "Nervous_system|Adult|Cholinergic",
"type": "adult cholinergic neuron"
},
{
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