destiny: diffusion maps for large-scale single-cell data in R

• DOI: 10.1093/bioinformatics/btv715
• Publication Date: 2015-12-15T02:54:41Z
• Authors: Philipp Angerer; Laleh Haghverdi; Maren Büttner; Fabian J. Theis; Carsten Marr; Florian Buettner
• Keywords: Destiny (ISS module)

: Diffusion maps are a spectral method for non-linear dimension reduction and have recently been adapted the visualization of single-cell expression data. Here we present destiny, an efficient R implementation diffusion map algorithm. Our package includes specific noise model allowing missing censored values. In contrast to previous implementations, further nearest-neighbour approximation that allows processing hundreds thousands cells functionality projecting new data on existing maps. We exemplarily apply destiny recent time-resolved mass cytometry dataset cellular reprogramming.destiny is open-source R/Bioconductor "bioconductor.org/packages/destiny" also available at www.helmholtz-muenchen.de/icb/destiny A detailed vignette describing functions workflows provided with [e-mail] or [e-mail] Bioinformatics online.