VirtualFlyBrain / VFB_connect

A library for querying VFB servers (neo4j, owlery, solr)
GNU General Public License v3.0
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feature request: method to get a list of all datasets #129

Closed schlegelp closed 3 months ago

schlegelp commented 4 months ago

This would be useful to find whatever goes into VfbConnect.get_instances_by_dataset. For example "Xu2020NeuronsV1point1" for hemibrain neurons.

Something like VfbConnect.get_datasets maybe? Should probably include name + short description, if possible.

Robbie1977 commented 3 months ago
from vfb_connect import vfb
vfb.get_datasets()
Index Label Symbol ID Tags MiniRef FlyBase PMID DOI
0 Male Adult Nerve Cord (MANC) connectome neurons Takemura2023 Entity DataSet,Individual,has_image Takemura et al., 2023 10.1101/2023.06.05.543757
1 Grooming neurons and drivers (Hampel 2015) Hampel2015 Entity DataSet,Individual,has_image Hampel et al., 2015, eLife 4: e08758 FBrf0229838 26344548 10.7554/eLife.08758
2 LexA driver targeting mechanosensory eye bristles Hampel2017 Entity DataSet,Individual,has_image Hampel et al., 2017, eLife 6: e28804 FBrf0236775 28887878 10.7554/eLife.28804
3 Split-GAL4 lines from Takagi et al., 2017 SplitTakagi2017 Entity DataSet,Individual Takagi et al., 2017, Neuron 96(6): 1373--1387.e6 FBrf0237618 29198754 10.1016/j.neuron.2017.10.030
4 split-GAL4 lines for descending neurons (Namiki...) Namiki2018 Entity DataSet,Individual,has_image Namiki et al., 2018, eLife 7: e34272 FBrf0239335 29943730 10.7554/eLife.34272
...
161 Split-GAL4 lines from Longden et al., 2023 SplitLongden2023 Entity DataSet,Individual
162 EM FAFB Bates and Schlegel et al 2020 BatesSchlegel2020 Entity DataSet,Individual,has_image,FAFB Bates and Schlegel et al., 2020 10.1016/j.cub.2020.06.042
163 Split-GAL4 lines from Turner-Evans et al., 2017 SplitTurner_Evans2017 Entity DataSet,Individual Turner-Evans et al., 2017, eLife 6: e23496 FBrf0235609 28530551 10.7554/eLife.23496
164 Split-GAL4 lines from Turner-Evans et al., 2020 SplitTurner_Evans2020 Entity DataSet,Individual,has_image Turner-Evans et al., 2020, Neuron 108(1): 145-... FBrf0246945 32916090 10.1016/j.neuron.2020.08.006
165 EM FAFB Baltruschat et al 2021 Baltruschat2021 Entity DataSet,Individual,has_image,FAFB Baltruschat et al., 2021, Cell Rep. 34(11): 10... FBrf0248487 33730583 10.1016/j.celrep.2021.108871