| Method | Platform | URL | Reference |
| trendsceek | R | https://github.com/edsgard/trendsceek | Edsgard et al. |
| SpatialDE | Python | https://github.com/Teichlab/SpatialDE | Svensson et al. |
| SPARK | R | https://xzhoulab.github.io/SPARK/ | Sun et al. |
| SPARK-X | R | https://xzhoulab.github.io/SPARK/ | Zhu et al. |
| GPcounts | Python | https://github.com/ManchesterBioinference/Gpcounts | BinTayyash et al. |
| BayesSpace | R | https://github.com/edward130603/BayesSpace | Zhao et al. |