Table 2.
Comparison to 3D single-cell and spatial transcriptomics visualisation tools.
| StarmapVis | CellexalVR [6] | SinglecellVR [7] | Theia1 [9] | vLume [10] | Squidpy + napari [8] | |
|---|---|---|---|---|---|---|
| Animation | (1)Animated matching between 3D scatter plot and 2D spatial histology (2) Camera animation along trajectory | Arrow animation to represent RNA velocity | Arrow animation to represent RNA velocity | No | No | No |
| Data Type | scRNAseq ST SCP IMC |
scRNAseq | scRNAseq SCP |
scRNAseq STPT IMC |
SMLM | Mainly ST |
| Availability | Open source | Open source | Open source | Request access | Open source | Open Source |
| VR headset | any | specific hardware | any | any | any | NA |
|
Tech stack/ Web portal |
JS + browser/VR | C#, R | JS + browser/VR | Unity, C#, python | C# | python |
| Install requirement | NA (web portal) | Download | NA(web portal) | Download | Download | pip |
| Smartphone Support | Yes | No | Yes | No | No | No |
| Work with Scanpy and/or Seurat | Yes | Yes | Yes | No | No | Yes |
ST: Spatial transcriptomics; SCP: Single-cell proteomics; STPT: Serial two-photon tomography; IMC: Imaging Mass Cytometry; SMLM: Single-molecule localisation microscopy.