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NeuroFly workshop feature requests #61

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schlegelp opened this issue May 4, 2021 · 0 comments
Open

NeuroFly workshop feature requests #61

schlegelp opened this issue May 4, 2021 · 0 comments
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@schlegelp
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schlegelp commented May 4, 2021

Just adding things as they pop up:

  1. Make it easier to find the data source(s) for given neurons and how to get it. A mock example of how this could work for a CATMAID data source:
# Get data sources for a set of neurons
>>> ds = vc.get_data_source([12345])
>>> ds 
   accession   source                                        url  project_id suggested_tool
0      12345  CATMAID  https://fafb.catmaid.virtualflybrain.org/           1         pymaid

# Explicit example
>>> vc.get_data_source_example(12345)
Install pymaid (https://pymaid.readthedocs.io/en/latest/) then run this:
import pymaid
rm = pymaid.connect_catmaid(server="https://fafb.catmaid.virtualflybrain.org/", api_token=None)
n = pymaid.get_neuron(12345)

Alternatively, you could wrap neuprint and pymaid (as soft dependencies perhaps) and provide a couple common entry points for e.g. getting skeletons or connectivity.

@dosumis dosumis self-assigned this May 5, 2021
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