Data Instances
The Hemibrain databases include many data instances necessary for the FlyEM Team's reconstruction
of the dataset. The most useful data are described below. To interact with a data instance through
the HTTP API, look at its documentation by either clicking on its label type in the DVID console or
using a URL like http://localhost:8000/api/help/labelmap
where localhost:8000 is the main DVID server and labelmap is the data type of the instance you
are trying to query.
| Data Instance | Data Type | Description |
|---|---|---|
| bookmark_annotations | annotation | General user-tagged point annotations |
| segmentation_todo | annotation | To-do annotations for organizing proofreading workflow |
| synapses | annotation | The synapse data organized spatially, by tag, and by label. |
| roi_data | keyvalue | |
| rois | keyvalue | |
| roisSmoothedDecimated | keyvalue | Key = ROI name.Value = Smoothed, decimated ROI surface mesh. |
| segmentation_annotations | keyvalue | See Note 1. |
| segmentation_meshes | keyvalue | Key = label ID + ".ngmesh". Value = Neuroglancer mesh. |
| segmentation_skeletons | keyvalue | Key = label ID + "_swc". Value = SWC file. |
| mito_20190501.24734943 | labelmap | |
| segmentation | labelmap | The supervoxel and agglomerated label of every voxel. |
| segmentation_roi_voxels | labelmap | See Note 2. |
| voxel-classes | labelmap | |
| synapses_labelsz | labelsz | See Note 3. |
| AB(L) to vACA(R) | roi | Each ROI is composed of run-length encoded spans of 32^3 voxel blocks. |
Notes:
- Labeled neurons can have a number of properties like class/instance (name is deprecated), status, and comment.
- Each voxel in
segmentation_roi_voxelshas a label corresponding to its position in a list of ROIs, where the label 1 is forAB(L), label 2 is forAB(R), etc. The list of ROIs:["AB(L)", "AB(R)", "AL(L)", "AL(R)", "AME(R)", "AOTU(R)", "ATL(L)", "ATL(R)", "AVLP(R)", "BU(L)", "BU(R)", "CA(L)", "CA(R)", "CAN(R)", "CRE(L)", "CRE(R)", "EB", "EPA(L)", "EPA(R)", "FB", "FLA(R)", "GNG", "GOR(L)", "GOR(R)", "IB", "ICL(L)", "ICL(R)", "IPS(R)", "LAL(L)", "LAL(R)", "LH(R)", "LO(R)", "LOP(R)", "ME(R)", "NO", "PB", "PED(R)", "PLP(R)", "PRW", "PVLP(R)", "SAD", "SCL(L)", "SCL(R)", "SIP(L)", "SIP(R)", "SLP(R)", "SMP(L)", "SMP(R)", "SPS(L)", "SPS(R)", "VES(L)", "VES(R)", "WED(R)", "a'L(L)", "a'L(R)", "aL(L)", "aL(R)", "b'L(L)", "b'L(R)", "bL(L)", "bL(R)", "gL(L)", "gL(R)"]. - Index of labels sorted by number of synapses by type:
PostSyn(post-synaptic),PreSyn(pre-synaptic), etc.