Man pages for wjawaid/roots
Reconstructing Ordered Ontogenic Trajectories
| animPlot | Animation plot |
| animPlotGif | Generates a GIF animating |
| applyGaussianKernelwithVariableSigma | Apply Gaussian Kernel using Laleh Haghverdi's variable sigma |
| bgGeneNorm | Normalise by background gene set |
| calculateVariableSigmas | Calculates sigmas for a distance matrix |
| colGrad | Generates a smooth colour gradient |
| diffuseMat | Generic diffusion function |
| diffuseProj | Predicts diffusion map projection from new data points |
| fastDist | Fast vectorised Euclidean distance calculator |
| filterGenes | Filter genes |
| findLouvain | Louvain clustering on transition matrix |
| fnc | Find next cell function |
| getTraj | Find a plausible developmental journey |
| goggles | View single cell dataset |
| sparseMarkov | Make markov matrix sparse |
