A free, browser-based online tool for visualizing and editing morphological neuron .swc files — no installation required.

• View, edit, import, and export .swc files in both 2D and 3D
• Export transparent PNG images for figures or presentations
• Edited .swc files can be used in simulation tools like NEURON and BRIAN
• Search and load neurons directly from NeuroMorpho.Org using their public API

🎬 See demo below ↓

To use a skeleton from MICrONS, which can be loaded via skeleton_plot or Meshparty run:

Loading the skeleton:

import skeleton_plot.skel_io as skel_io
skel_path = "s3://bossdb-open-data/iarpa_microns/minnie/minnie65/skeletons/v661/skeletons/"
nucleus_id = 256609
segment_id = 864691135404231406
skel_filename = f"{segment_id}_{nucleus_id}.swc"
sk = skel_io.read_skeleton(skel_path, skel_filename)

Exporting the skeleton to SWC:

import numpy as np
sk.export_to_swc(
    f'{nucleus_id}.swc',
    node_labels=sk.vertex_properties["compartment"],
    radius=np.array(sk.vertex_properties["radius"]),
    xyz_scaling=1
)