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 |