make_anno_layer

This function converts a list of annotations into a neuroglancer-format dictionary for an annotation layer.

Arguments:

• datatack (string, mandatory)
  • the name of the datastack the annotations are for
• annotations (list, mandatory)
  • a list of all the annotations formatted correctly for the type
  • exact structure varies depending on annotation type (point, line, sphere etc.)
• layer_type (string, mandatory)
  • the type of annotations in the layer
  • supported types are "point", "line", "bbox", "sphere"/"ellipsoid", "polyline", and "mixed"
• layer_name (string, mandatory)
  • the name you want the layer to have in neuroglancer
• layer_color (string, optional, default=None)
  • if a hexadecimal value is passed as a string (e.g. "#00FF00"), this will be the color of the annotations
  • default value of None results in yellow
• descriptions (list of strings, optional, default=[])
  • list of annotation descriptions, length must match list of annotations
• linked_segs (list of integers, optional, default=[])
  • list of segment IDs to link annotations to, must be same length as list of annotations
  • list shape varies based on what type of annotation is used
  • point = (n)-shaped
  • line = (n,2)-shaped
  • bbox, sphere/ellipsoid, polyline, mixed = (n,m)-shaped
• linked_seg_layer_name (string, optional, default=None)
  • the name of the segmentation layer if linking one to the annotations
  • mandatory if using linked annotations

Returns:

• anno_layer_dict (dictionary)
  • dictionary for an annotation layer of the appropriate type
  • structured to work with neuroglancer JSON state format

Example

Coming soon.