MissGene, Cross-species perturbation prediction: MissGene combines GRBBoost2, DEG analysis, E-test, and transfer learning to infer altered gene expressions in cross-species scRNA-seq data.

In2Cell, Deconvolution of bulk RNA-seq for 300+ species: In2Cell builds dynamic references by integrating 300+ species TimeTree and 100 species brain scRNA-seq signatures, facilitating nonnegative least squares-based prediction of bulk RNA-seq cell type compositions.

SpaceTeller, Spatial transcriptomics deconvolution of bulk RNA-seq for different species: SpaceTeller integrates in2Cell and Bulk2Space to provide an effective solution for deconvolving bulk RNA-seq data at ST resolution.

Teddi, Time Efficient Data Downsampling

EvoPred, Cross-species automatic cell-type Prediction: guided by TimeTree that depicts distances between 300+ species, CamPred relies on transfer learning from dynamic species references to annotate cell types of query species.

RecallST, Bridging development gaps at spatial transcriptomic resolution: GapBridger uses a bi-directional optimal transport algorithm to infer spatial transcriptomics patterns between two timepoints of evolution.

DrSpace, Disease-rating based on Spatially resolved cancer micro-environment