DESCRIPTION

Package: embeddr
Title: Laplacian eigenmaps & principal curves for pseudotemporal ordering of single-cell RNA-seq data
Description: Cells sequenced using RNA-seq are invariably at different stages of progression through a diverse range of biological processes. Embeddr uses the laplacian eigenmap algorithm to perform a non-linear dimensionality reduction of the scRNA-seq data before using principal curves to trace through the centre of the manifold and assign a 'pseudotime' to each cell. A range of functions for differential expression is also included.
Version: 0.99.0
Authors@R: person("Kieran", "Campbell", , "kieran.campbell@sjc.ox.ac.uk", role = c("aut", "cre"))
Maintainer: Kieran Campbell <kieran.campbell@sjc.ox.ac.uk>
Depends: R (>= 3.2)
License: GPL-3
LazyData: true
biocViews: RNASeq, GeneExpression, Visualization
Imports:
  scater, 
  ggplot2,
  princurve,
  plyr,
  dplyr,
  mclust,
  reshape2,
  AER,
  lmtest,
  splines,
  survival,
  Biobase,
  parallel,
  lsa,
  igraph
Suggests:
  NMF,
  monocle,
  HSMMSingleCell,
  knitr,
  cowplot,
  ggthemes,
  BiocStyle,
VignetteBuilder: knitr