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1. ouija ouija Public

   Descriptive probabilistic marker gene approach to single-cell pseudotime inference

   R 28 3

2. clonealign clonealign Public

   Bayesian inference of clone-specific gene expression estimates by integrating single-cell RNA-seq and single-cell DNA-seq data

   R 32 6

3. Irrationone/cellassign Irrationone/cellassign Public

   Automated, probabilistic assignment of cell types in scRNA-seq data

   R 195 82

4. phenopath phenopath Public

   Genomic trajectories (pseudotimes) in the presence of heterogenous environmental and genetic backgrounds

   C++ 10

5. switchde switchde Public

   Inference of switch-like differential expression along single-cell trajectories

   R 19 4

6. ouijaflow ouijaflow Public

   Probabilistic single-cell pseudotime with Edward+Tensorflow

   Python 12 1