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Data sources

Verified 2026-09-26 by listing buckets, downloading files, computing on them and querying APIs. Every SHA-256 below is of a file on this machine under .cache/data/ and its base64 MD5 matched the GCS object hash. Anything not directly verified is marked UNVERIFIED. Full notes with schemas, snippets and every column: docs/research/data_malecns.md, docs/research/data_flywire_and_others.md.

0. Summary

Dataset Version(s) Bulk access (no token) Live API (token) Neurons Licence Our registry status
MaleCNS v1.0 (2026-06-08; v0.9 2025-10-05) gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/ Feather neuPrint male-cns:v1.0 166,700 CC BY 4.0 pin now
FlyWire / FAFB v783 (latest, Oct 2023), v630 (June 2023) gs://flywire-data/codex/data/fafb/{630,783}/ CSV.gz, public (the Codex web page is only a login front for the same bucket); Zenodo 10676866 (v783 Feather) CAVE flywire_fafb_public (token; even the info endpoint redirects to login now) 139,255 / 127,978 papers + Zenodo CC BY 4.0; Codex bucket has no LICENSE object; FlyWire ToS text UNVERIFIED pin now (both)
Shiu 2024 model inputs v630 export of 2023-03-23 (+ v783 twin) GitHub philshiu/Drosophila_brain_model raw files – 127,400 MIT pin now (sim golden input)
hemibrain v1.2.1 (neuPrint); v1.2 flat export gs://hemibrain/v1.2/ (public) neuPrint hemibrain:v1.2.1 21,739 traced non-cropped CC-BY (version UNVERIFIED on page; paper CC BY 4.0) pin in M1
MANC v1.0 (flat export), v1.2.1 (neuPrint, Codex, sjcabs), v1.2.3 gs://flyem-manc-exports/v1.0/ (public); no v1.2.x flat export except synapse partners in gs://manc-seg-v1p2/; Codex manc/1.2.1/neurons.csv.gz neuPrint manc:v1.2.1 23,759 / 23,665 traced CC-BY pin v1.2.1 via Codex neurons + neuPrint edges (or sjcabs) in M1
BANC v888 (publication, 2026-04-16), v626 (preprint) gs://lee-lab_brain-and-nerve-cord-fly-connectome/ (public) and Harvard Dataverse DVN/7WTH1N v3.0 (CC BY 4.0); Codex banc/888/ CAVE brain_and_nerve_cord_public (token) 156,012 proofread+rough (meta); 158,262 (Codex) CC BY 4.0 pin in M1 (was "TODO" in the brief; it is fully public)
FANC public exports v1237, v1444; BANC cross-refs v1116 gs://lee-lab_female-adult-nerve-cord/CAVE/v1444/ parquet (public) CAVE fanc_production_mar2021 restricted (PI must email the lab) 21,978 cell IDs none stated adapter only; no cell types in public export
sjcabs compiled_data BANC 888, FAFB 783, MANC 1.2.1, hemibrain 1.2.1, MaleCNS v0.9 gs://lee-lab_brain-and-nerve-cord-fly-connectome/compiled_data/ (public) – – code MIT; data "CC-BY by the respective creators" vocabulary adopted; files not primary

Two access facts that change the plan relative to the brief: FlyWire bulk data needs no login, and BANC is fully public under CC BY 4.0 with a compiled meta table that already carries cross-dataset type and match-ID columns.

Token status (2026-09-26): neuPrint tokens issued before 2026-08 are invalid (auth migration); the public neuPrint server answered anonymous Cypher for male-cns:v1.0, hemibrain:v1.2.1 and manc:*, but neuprint-python refuses to construct a client without a token and this openness is undocumented. CAVE info and materialization endpoints for FlyWire, BANC and FANC all redirected to login.

1. MaleCNS v1.0

  • Site: https://male-cns.janelia.org (download/, release/). Release notes are two lines: v1.0 (June 8, 2026) "Minor proofreading changes", "Refinement of neuron annotations"; v0.9 (October 5, 2025) initial release. No counts or thresholds on the site.
  • Paper: Berg S, Beckett IR, Costa M, Schlegel P, Januszewski M, … Jefferis GSXE (111 authors). Sexual dimorphism in the complete Drosophila male central nervous system connectome. Cell 189(18):5504–5526.e15, 2026. doi:10.1016/j.cell.2026.08.015. PMID 42691995. CC BY 4.0. Preprint bioRxiv 10.1101/2025.10.09.680999. Companion Cell papers: visual pathways 10.1016/j.cell.2026.08.014, gustatory connectome 10.1016/j.cell.2026.08.016. (Cell full text is Cloudflare-blocked from here.)
  • Licence: "The Male CNS dataset is licensed under CC-BY" (footer links CC BY 4.0). No further terms.
  • neuPrint: https://neuprint.janelia.org, dataset male-cns:v1.0 (v0.9 still served). Also neuprint-cns.janelia.org (401 anonymous). Clio, Cell Type Explorer, Dimorphism Explorer, NeuronBridge.
  • Bucket: gs://flyem-male-cns/v1.0/connectome-data/flat-connectome/; HTTPS https://storage.googleapis.com/flyem-male-cns/.... Neo4j database directory (251.8 GB, Neo4j 4.4.16) at v1.0/database/neo4j/; neuPrint input CSV/Feather at v1.0/database/neuprint-inputs/ (194 GB).
File Bytes SHA-256 Rows Default?
body-annotations-male-cns-v1.0-minconf-0.5.feather 14,483,314 2177e246113e4cfbf1e7772ec37c6da1955ff22e8063d0b1f833101f99a9a3b2 211,577 × 36 yes
body-neurotransmitters-male-cns-v1.0.feather 43,282,834 95c9289220663abeb3409f3ad9e5a7f8a53f8093f5139d15502cd08da8879621 1,835,518 × 10 yes
connectome-weights-male-cns-v1.0-minconf-0.5.feather 1,051,241,946 e35da783d1c686b2b58b3b87cd6a403ae43bfcfba8bff28e08ef752c1a56afc1 151,856,684 × 3 --level weights
connectome-weights-…-traced-only.feather (undocumented) 508,025,642 UNVERIFIED (not downloaded) 25,563,197 × 5 (type_pre/type_post added) candidate default neuron graph
body-stats-male-cns-v1.0-minconf-0.5.feather 778,062,826 ca5dc83a26382ae70c8d8f42fc09ce2dbc1af7c03f3a001a1936b5e142540647 88,384,522 × 11 optional
tbar-neurotransmitters-male-cns-v1.0.feather 2,651,680,218 not downloaded 45,656,140 (7 nt_*_prob columns, rows sum to 1) --level nt-probs
syn-partners-…-minconf-0.5.feather 6,777,179,098 not downloaded 311,833,243 --level synapses
syn-points-…-minconf-0.5.feather 13,061,489,098 not downloaded 357,489,383 --level synapses

Schema essentials (annotations): bodyId; status (Traced 165,122 / Orphan / Glia / Unimportant / Assign / Anchor) and ordered statusLabel (31 categories); superclass (27 values; non-null = 166,700 = the paper's neuron count); class, subclass, type (11,751 distinct), instance, group, supertype; somaSide L/R/M, rootSide, somaNeuromere, somaLocation [x,y,z] 8 nm voxels; cross-refs flywireType (143,156 bodies), hemibrainType (32,919), mancType/mancBodyid/mancGroup/mancSerial; itoleeHl, trumanHl, birthtime; dimorphism (4 values), fruDsx (6), synonyms, matchingNotes; entryNerve/exitNerve, receptorType, assignedOlHex1/2, vfbId. NT file: body, cell_type, total_nt_predictions, predicted_nt, predicted_nt_confidence, ground_truth (85,484 rows), celltype_*, consensus_nt. No per-transmitter probabilities at body level. Traced-body predicted_nt: ACh 94,946, Glu 28,055, GABA 20,218, unclear 14,365, DA 4,443, His 2,026, 5-HT 465, OA 102. Weights: body_pre, body_post, weight int64; no ROI column; sum 311,833,243 = total PSDs; Traced→Traced 25,563,197 edges / 124,025,046; ≥5: 7,622,864 edges (all segments). Thresholds: minconf-0.5 = synapse predictions with confidence < 0.5 excluded before export (flyem-snapshot min-confidence); presynapses are already ≥0.70, so the filter bites on postsynaptic confidence only. neuPrint Meta: postHighAccuracyThreshold 0.5, postHPThreshold 0.7. Hence flat weight = neuPrint weight. ROIs: 144 primary neuPrint ROIs (brain neuropils L/R, VNC neuropils, nerves), 5,619 total incl. optic-lobe column ROIs. The flat weights file has no ROI split; per-ROI weights need syn-partners (primary_post) or neuPrint. Caveats: 58 % of PSDs sit on unannotated fragments; 1,991 superclass-bearing neurons are "Out of scope"; 516 Traced bodies lack a superclass; type count 11,751 vs paper's 11,710 (UNVERIFIED cause); dimorphism tallies in the file do not reproduce the abstract's counts. Citation to emit: Berg et al. 2026 (Cell) plus, for NT predictions, the paper's Methods (the classifier lineage is Eckstein et al. 2024; UNVERIFIED whether a separate MaleCNS NT paper exists).

2. FlyWire / FAFB (v630, v783)

  • Latest public snapshot v783 (Codex FAQ "v783 – Oct 2023 [latest release]"; bucket has only 630/ and 783/; flywire_annotations v3.1.0 of 2026-07-21 is still 783-based; Zenodo says 783 is latest). Whether CAVE has newer materializations is UNVERIFIED (token).
  • Bulk, no login: https://storage.googleapis.com/flywire-data/codex/data/fafb/{630|783}/<file> (this is the URL template in Codex's own loader). Codex web downloads need Google sign-in + api_token but front the same bucket. Files are refreshed in place without version bumps (e.g. 783 classification.csv.gz 2026-02-24), so the registry pins MD5/SHA-256 per file and records the GCS updated time.
  • Zenodo 10.5281/zenodo.10676866 (CC BY 4.0): proofread_connections_783.feather 852 MB (pre/post root, neuropil, syn_count, per-NT avg), flywire_synapses_783.feather 9.5 GB (has cleft_score), proofread_root_ids_783.npy.
  • Annotations: flyconnectome/flywire_annotations (Schlegel 2024 supplements; v3.1.0 2026-07-21): Supplemental_file1_neuron_annotations.tsv 139,248 rows × 31 (cell_type, hemibrain_type, supertype, top_nt, top_nt_conf, known_nt, dimorphism, fru_dsx, vfb_id, fbbt_id, …); Supplemental_file5_hemibrain_meta.csv 25,397 hemibrain bodies.
  • CAVE: datastack flywire_fafb_public; token from https://global.daf-apis.com/auth/api/v1/create_token after accepting FlyWire terms.

Key files on disk (SHA-256 in the research note for all 40):

File Bytes SHA-256 Rows
630/neurons.csv.gz 1,572,661 a0be4670993d86cea0a4724ba24f874c9d867a24f4e248ff30dcf9b6565d81bb 127,978
630/classification.csv.gz 1,011,550 b2cf34ef76f5750e647334b56c73ae7f49c96f0fee3371e8a52d26c835a3b499 127,979 (one id not in neurons.csv)
630/connections.csv.gz 26,124,953 68144490b8585fb6b1bf5979d923a3b1081b435cd52b7f82daed1beb6b84781a 3,794,615 rows; 2,613,129 pairs
783/neurons.csv.gz 1,679,884 6a6b3759e635f0f35a677d169052362131ec61d95f55919298b55c43fce4e719 139,255
783/classification.csv.gz 934,402 e946b552f4056dfc977707be0674609832c3f64332a22d69dc0d9615e7aae663 139,255
783/fw_and_hemibrain_types.csv.gz 1,043,857 193f266279f20cfd816e3631a9225cf887d3424d337454a20f09d10916472bd0 139,255
783/consolidated_cell_types.csv.gz 901,707 8aba246d71dc40361677493629972ce3883048c3d02010adc42bda22962a1a2d 138,327
783/cell_stats.csv.gz 2,526,548 bd5879e1b5df964bea2f3ca5316348d4276ce2ccaac283f0e36583c04fbd3d8e 139,246 (9 neurons lack stats; not a neuron-count source)
783/connections.csv.gz (= connections_buhmann.csv.gz, identical MD5) 50,289,304 d49dd692e59e153aa3c83f5257bfc0eff51247b86d7bb183386c6d1622c70fc9 3,869,878 rows; 2,700,513 pairs
783/connections_princeton.csv.gz 68,456,801 445f996bf6c4b1803b9ba186189138a3061ff8623aa94c0abcf38af30a5bd48b 5,342,446 rows; 3,732,460 pairs
783/connections_no_threshold.csv.gz 212,093,967 not downloaded all pairs
630/no_threshold_connections.csv.gz 116,904,594 not downloaded (no header row) all pairs

Schema: neurons.csv = root_id, group, nt_type ∈ {ACH,GABA,GLUT,DA,SER,OCT}, nt_type_score, da_avg, ser_avg, gaba_avg, glut_avg, ach_avg, oct_avg (mean per-presynapse probabilities, Eckstein 2024, 6 classes; 9,906 all-zero rows in 783; no confidence floor applied; DA calls drop from 3,189 (630) to 584 (783), reason UNVERIFIED). classification.csv 783 = root_id, flow, super_class, class, sub_class, hemilineage, side, nerve (types live in fw_and_hemibrain_types.csv); 630 also has cell_type, hemibrain_type. super_class vocabulary: optic, central, sensory, visual_projection, ascending, descending, sensory_ascending, visual_centrifugal, motor, endocrine. Connections: pre_root_id, post_root_id, neuropil (79 values incl. UNASGD), syn_count, nt_type (presynaptic neuron's call). One row per (pre, post, neuropil); the ≥5 filter is on the pair total (per-row counts go to 1). Summing rows recovers exactly 2,613,129 (v630, Lin24) and 2,700,513 (v783, Dork24) pairs. Two synapse detections since July 2025: Buhmann 2021 (connections.csv, connections_buhmann*) and Princeton/Yu 2025 (connections_princeton*, ~48 % more synapses; Codex's live UI count 3,732,460 comes from it). Codex CSVs expose no per-synapse cleft scores; Shiu and Lin used cleft score ≥ 50 on Buhmann synapses. Shiu model inputs vs Codex v630: 127,319 IDs in common; 659 Codex-only neurons have no ≥5 connection anywhere; 81 Shiu-only IDs are pre-freeze root IDs (UNVERIFIED); every Codex v630 pair appears in the Shiu file with identical weight. Citations (from Codex's own citation table): always co-cite Dorkenwald et al. 2024 (10.1038/s41586-024-07558-y) and Schlegel et al. 2024 (10.1038/s41586-024-07686-5); plus Zheng 2018 (EM volume), Buhmann 2021 + Heinrich 2018 (synapses before July 2025) or Yu 2025 bioRxiv 10.1101/2025.07.11.664377 (Princeton synapses), Eckstein et al. 2024 (NT), Matsliah et al. 2024 (optic-lobe types), Lin et al. 2024 (connectivity tags), Deutsch 2025 (dsx/fru). For annotation versions ≥3.0.0 also Berg et al. 2026. Licence: Nature papers and Zenodo deposits CC BY 4.0; the Codex bucket carries no LICENSE object; FlyWire ToS applies to accounts (text UNVERIFIED).

3. Shiu et al. 2024 model inputs (sim golden data)

Repo philshiu/Drosophila_brain_model, MIT. Raw URLs https://raw.githubusercontent.com/philshiu/Drosophila_brain_model/main/<file>.

File Bytes SHA-256
2023_03_23_connectivity_630_final.parquet 86,630,944 94db8c650533bc36ffa3223f2e62325d5648b8d6bd31c3a4e1c804628c7557b3
2023_03_23_completeness_630_final.csv 3,057,611 e6b71e17671a9bdb05f55e4bc6774640a1418cb7a05125e0fc994ad40f9bfdfb
Connectivity_783.parquet / Completeness_783.csv 100,804,642 / 3,327,347 not downloaded
results/example/sugarR{,_100Hz,-<id>}.parquet 0.5–0.9 MB each copied to .cache/data/shiu/results/

Columns: Presynaptic_ID, Postsynaptic_ID, Presynaptic_Index, Postsynaptic_Index, Connectivity, Excitatory (±1), Excitatory x Connectivity. 127,400 neurons, 14,687,178 edges, min 1 synapse. Cite Shiu et al. 2024 (10.1038/s41586-024-07763-9). Raw model outputs (4.5 GB) on Edmond doi:10.17617/3.CZODIW.

4. hemibrain v1.2 / v1.2.1

  • neuPrint hemibrain:v1.2.1 only; Meta: totalPreCount 9,496,606, totalPostCount 64,139,744, postHighAccuracyThreshold 0 (weights include low-confidence PSDs; weightHP uses 0.7), no NT properties on Neuron nodes.
  • Bucket gs://hemibrain/v1.2/ (public): exported-traced-adjacencies-v1.2.tar.gz 45,872,577 B, SHA-256 07d8946eb0c4e3a5cb23d5769c9817847494f9fcadbc0ca239eed7bbd5555cf7 → traced-neurons.csv (21,739 non-cropped Traced; bodyId, type, instance), traced-total-connections.csv (3,550,403 edges, Σ 14,329,229, ≥5: 662,578), traced-roi-connections.csv (62 ROIs incl. NotPrimary); hemibrain-v1.2-body-mean-neurotransmitters.feather 45,591,786 B, SHA-256 aab49d858415f559f469a9293adfb4d58e423db83a5debb24272ee4d66e059ad (837,710 bodies; gaba, acetylcholine, glutamate, serotonin, octopamine, dopamine, neither probabilities summing to 1; predicted_nt; uploaded 2026-05-15, provenance UNVERIFIED, no README); also per-T-bar NT feather (443 MB bz2), all-traced adjacencies, synapse partners (859 MB), skeletons.
  • v1.2 export vs v1.2.1 DB: 342 edges / 4,077 synapses differ ("minor fixes").
  • Side/hemilineage are not in neuPrint; use Schlegel Supp. 5 or sjcabs hemibrain_121_meta.
  • Licence CC-BY (Janelia page; version UNVERIFIED). Cite Scheffer et al. 2020, eLife 9:e57443 (10.7554/eLife.57443).
  • Converter flyconn.data.convert.hemibrain (flyconn data pull hemibrain@1.2.1): universe and edges from the export tarball; Supplemental_file5_hemibrain_meta.csv pinned at https://raw.githubusercontent.com/flyconnectome/flywire_annotations/v3.1.0/supplemental_files/Supplemental_file5_hemibrain_meta.csv (2,634,367 B, SHA-256 c9ca8421a5b6a5382348e06a7f62ef452bc78562983deff9ff479e30be2bd2a2; same bytes on main); sjcabs hemibrain_121_meta.feather (2,023,858 B, SHA-256 a2775c31450d3a060875bd5690adcb9800d3c9a580a9a919e10829984c79a1d1, MD5 matches the bucket listing). The tarball is registered at level meta because it carries the neuron list. Results in GOLDEN_RESULTS 6e.

5. MANC v1.0 / v1.2.1

  • neuPrint manc:v1.0 (23,759 Traced today), manc:v1.2.1 (23,665 Traced; 5,305,638 Traced→Traced edges, Σ 30,934,610 = Codex's unthresholded count), manc:v1.2.3 (property update). postHighAccuracyThreshold 0.4.
  • Flat export only for v1.0: gs://flyem-manc-exports/v1.0/ (manc-v1.0-neuron-properties.feather 17,188,218 B, SHA-256 0c4476528906bb0a20e05e1f01e83fc2e5a582761536171ede5463669ca0b891, 102,369 bodies × 56 cols incl. ntGabaProb, ntAcetylcholineProb, ntGlutamateProb, ntUnknownProb, predictedNt, predictedNtProb; traced-neurons.csv 23,188; traced-connections.csv; neuPrint CSV/Feather dumps). v1.2 synapse partners: gs://manc-seg-v1p2/manc-v1.2-synapse-partners-minconf-0.0.feather (1.94 GB). Codex gs://flywire-data/codex/data/manc/1.2.1/neurons.csv.gz (23,665 rows, SHA-256 ddeea1ff2859941d60a8f24933eb963d1f65d28d2399768c589a74bb90ac4a80).
  • NT classifier is 3-class (ACh/GABA/Glu) + unknown/unclear; no monoamines. Sides RHS/LHS; hemilineages Truman 0A…27X.
  • Licence CC-BY. Cite Takemura et al. 2024 eLife 13:RP97769; Marin et al. 2024 eLife 13:RP97766; Cheong et al. 2025 eLife 13:RP96084.
  • Converter flyconn.data.convert.manc (flyconn data pull manc@1.2.1) reads the sjcabs compiled files: compiled_data/manc_121/manc_121_meta.feather (1,446,722 B, SHA-256 067c88e687ade67bd1e69b88765b4b21596280618cefde0fa43117d4af4a9439; 23,650 rows = 23,665 Traced minus 15 glia) and manc_121_simple_edgelist.feather (87,386,906 B, SHA-256 c3f9ca6dc9d100e72299b41136d373ffcd60b328624cbfd6ac145f071e0b28ac, MD5 7ko0TfSZiZ1EGPF2O8OaMA== as listed; 5,305,354 rows pre, post, count, norm, total_input, string ids, Σ count 30,943,884; total_input = Σ count per post over traced partners), plus Codex neurons.csv.gz for NT confidence and vfbId. sjcabs data are CC BY by the dataset creators; cite the MANC papers. Results in GOLDEN_RESULTS 6e.

6. BANC v888

  • Public bucket gs://lee-lab_brain-and-nerve-cord-fly-connectome/ (README, CHANGELOG, compiled_data/, neuron_annotations/v888/, neuron_connectivity/v888/, synapses/, nblast/, meshes, skeletons); Harvard Dataverse doi:10.7910/DVN/7WTH1N v3.0 (2026-07-01, CC BY 4.0, 536 GB). CAVE brain_and_nerve_cord_public (token). Codex banc/888/.
  • Paper: Bates AS, Phelps JS, Kim M, Yang HH, … Lee W-CA, Wilson RI. Distributed control circuits across a brain-and-cord connectome. Nature 656:957–970 (2026). doi:10.1038/s41586-026-10735-w. CC BY 4.0.
  • banc_888_meta.feather 57,503,026 B, SHA-256 86ccf5df0c67419f8c5f43e93a7ed38d23a080e9f7fde26737290252f3780098, 188,508 × 81 (patched in place after publication: root_890 present; pin MD5). Identifier columns are strings. proofread TRUE 150,952 + roughly_proofread 5,060 = 156,012 (paper: 155,916). super_class BANC vocabulary; neurotransmitter_predicted 8 classes (adds histamine, tyramine) with neurotransmitter_score; cross-refs fafb_cell_type (131,240), manc_cell_type, malecns_cell_type (43,490; v0.9), hemibrain_cell_type, fanc_cell_type, *_match IDs, *_nblast_match.
  • neuron_annotations/v888/codex_annotations.parquet 74,350,281 B, SHA-256 8a52f5f84f439603881bb360ea990601fd593072261c8cfb9afb0b3842f89eda: long-form, 1,841,078 rows, 31 classification systems incl. fafb_783_cell_type, fafb_783_match_id, manc_121_*, hemibrain_121_*, malecns_09_*, fanc_1116_*.
  • Edgelists (not downloaded): compiled_data/banc_888/banc_888_edgelist_simple_v2.feather 305 MB (11,510,975 rows; synapse detector v2, size ≥5, no pair threshold), _v3 359 MB (13,507,098; new detector, size ≥10). Columns pre, post, count, norm, pre_count, post_count. Per-synapse 8-NT probabilities: synapses/v3.0/banc_nt_prediction_v3_w_sizethresh_10_05042026.parquet 5.79 GB.
  • Codex banc/888/neurons.csv.gz 2,881,728 B, SHA-256 40a2201554a8c34d2c4b07c8322543a07c1b3faf5acafbac363fd1a3d0fa617f, 158,262 rows; Codex BANC default threshold 3.
  • Caveats: both antennal nerves damaged; two synapse versions (paper v2, recommended v3); 22 known problem regions; left optic lobe less typed.

7. FANC

  • Public exports gs://lee-lab_female-adult-nerve-cord/CAVE/{v1237,v1444}/ (parquet with CAVE metadata; datastack fanc_production_mar2021): cell_ids_v2.parquet (21,978; user_id is the stable cell ID), somas_dec2022, neck_connective, peripheral_nerves, proofread_first_pass (7,246), proofread_second_pass (1,771), synapses_nov2022_…connectioncounts_countthresh3.parquet (1,878,659 pairs ≥3, Σ 11,801,582; most postsynaptic roots are unproofread fragments), per-neuropil variant (43 neuropils/tracts). SHA-256s in the research note.
  • Live CAVE is restricted to community members (PI emails the Lee lab; no public applications). No cell-type table in the public export; FANC types reach us only via BANC (fanc_1116_cell_type, 2,905 neurons).
  • Licence: none stated (UNVERIFIED). Cite Phelps et al. 2021 Cell; Azevedo et al. 2024 Nature 631:360 (10.1038/s41586-024-07389-x); Lesser et al. 2024 Nature 631:369 (10.1038/s41586-024-07600-z).

8. sjcabs compiled_data (harmonized vocabulary source)

Bucket gs://lee-lab_brain-and-nerve-cord-fly-connectome/compiled_data/{banc_888,fafb_783,manc_121,hemibrain_121,malecns_09,fanc_1116}/; built by flyconnectome/bancpipeline; code MIT; data "CC-BY by the respective dataset creators"; asks to cite original papers + Eckstein 2024. Meta feathers on disk (SHA-256 in the note): fafb_783 144,837 × 24; hemibrain_121 25,397 × 19; manc_121 23,650 × 15; malecns_09 165,114 × 33; banc_888 188,508 × 81. Thirteen columns are common to all five: region, hemilineage, nerve, flow, super_class, cell_class, cell_sub_class, cell_type, neurotransmitter_predicted, cell_function, cell_function_detailed, body_part_sensory, body_part_effector. Edgelists carry pre, post, count, norm[, total_input] with no pair threshold. BANC-space files for other datasets are morphology only.

9. Harmonized schema alignment (seed for M1)

flyconn field sjcabs/BANC Codex FAFB MaleCNS v1.0 hemibrain MANC Notes
neuron_id <ds>_id (string) root_id int64 bodyId bodyId bodyId store as uint64/string; keep source dtype in provenance
flow flow flow derive from superclass – derive from class afferent/intrinsic/efferent
super_class BANC vocab central, optic, … cb_/ol_/vnc_intrinsic, … Schlegel Supp. 5 / sjcabs class map to BANC vocab; keep super_class_raw
cell_class, cell_sub_class long snake_case class, sub_class class, subclass – subclass keep raw
cell_type cell_type cell_type + hemibrain_type (783: separate file) type type type, systematicType
hemilineage ItoLee / Truman mixed ItoLee itoleeHl, trumanHl Supp. 5 Truman two columns
side left/right/center side somaSide L/R/M Supp. 5 somaSide LHS/RHS normalise to left/right/center
nt_pred, nt_conf, nt_p_* neurotransmitter_predicted/_score (string dtype in F/H!) nt_type, nt_type_score, six *_avg predicted_nt, predicted_nt_confidence, consensus_nt (no probs) feather 6+neither probs 3-class probs record class set per source (3/6/7/8)
cross-refs fafb_cell_type, manc_cell_type, hemibrain_cell_type, malecns_cell_type, fanc_cell_type, *_match hemibrain_type flywireType, hemibrainType, mancType, mancBodyid – synonyms plus vfb_id/fbbt_id as neutral keys
edges pre, post, count, norm (no threshold) pre_root_id, post_root_id, neuropil, syn_count (pair ≥5, per-neuropil rows) body_pre, body_post, weight (no ROI) bodyId_pre, bodyId_post, weight (+ROI file) neuPrint weight store threshold and synapse_source metadata per edge table

10. Open items

CAVE materialization lists (token); hemibrain NT feather provenance; FlyWire ToS text and the 630→783 DA-call drop; the 81/659 Shiu–Codex ID differences; FANC licence; MANC v1.2.x flat exports; MaleCNS NT "unclear" thresholds and the 11,751 vs 11,710 type delta (Cell Methods).