Instructions

Enter a FlyCircuit neuron id to compare against all FlyCircuit neurons, with NBLAST. If the checkbox below is ticked, both forwards and reverse scores will be calculated, normalised and averaged, rather than just using the forwards score. The query neuron will be plotted in black in the 3D viewer to the right, alongside the top 10 hits (rainbow coloured from red = best to pink = worst).

Query:

E.g. fru-M-200266
Using the mean score is useful for finding exact matches, i.e. one in which the target is a good hit for the query and the query is a good hit for the target too. This is particularly useful for clustering neurons into types, rather than, for example, just finding neurons that go through the same tract but branch off differently.

3D view

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NBLAST results

What do these scores mean?
Download all scores as CSV

Top 10 hits

Top 10 clusters

Score distribution

Instructions

Enter two FlyCircuit neuron ids to compare with NBLAST. The query neuron will be plotted in red in the 3D viewer to the right, while the target neuron will be drawn in blue.

Query:

Target:

3D view

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Instructions

Upload a tracing or skeletonised neuron to compare against all FlyCircuit cluster examplars (or all neurons, if checkbox below is ticked), using NBLAST. The query neuron will be plotted in black in the 3D viewer to the right, alongside the top 10 hits (rainbow coloured from red = best to pink = worst).

Query

This tracing must be registered to one of the template brains we support (see below).

Using the mean score is useful for finding exact matches, i.e. one in which the target is a good hit for the query and the query is a good hit for the target too. This is particularly useful for clustering neurons into types, rather than, for example, just finding neurons that go through the same tract but branch off differently.

3D view

Loading...
Loading...

NBLAST results

What do these scores mean?
Download all scores as CSV

Top 10 hits

Score distribution

Instructions

Enter a FlyCircuit neuron id to compare against all FlyLight GAL4 lines, with NBLAST.

Query:

E.g. TPHMARCM-509F-montage_seg1

Num hits:

NBLAST results

This web app accompanies Costa et al. NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases. Neuron (2016). A pre-print version is available from BiorXiv: Costa et al. (2014). More information on other NBLAST resources is available here. NBLAST on-the-fly acts as a demonstration of the core NBLAST algorithm (package nat.nblast), along with some features of the NeuroAnatomy Toolbox and its helper packages: nat.templatebrains and nat.flybrains. Other resources available are listed here. For further information on how we convert data between template brains, see here.

Video demos

Video demos showing how to use this web app and other related resources are available here.

More help

If you require information not contained in the manuscript, you can use the nat-user google group shown below. Searching the archive is available to all. To post a question you will first need to request to join the group.

Local installation

Instructions on how to install this app locally are here, along with a video demo here.

Source code

The full code for this web app can be downloaded from GitHub.

Preparing own data

Protocols for immunostaining and imaging fly brains, as well as registration of the resulting images are available from Cold Spring Harbor Protocols. We recommend the use of Simple Neurite Tracer for tracing neurons from the acquired images, detailed instructions for which are available from here.