Package: scTEP
Type: Package
Title: Single-Cell Trajectory Inference using Ensemble Pseudotimes
Version: 0.1.0
Authors@R: c(
    person("Yifan", "Zhang", ,"yfzhang@nevada.unr.edu", role = c("aut", "cre")),
    person("Duc", "Tran", role = c("aut")),
    person("Tin", "Nguyen", role = c("fnd")),
    person("Sergiu M.", "Dascalu", role = c("fnd")),
    person("Frederick C.", "Harris, Jr.", role = c("fnd"))
    ) 
Maintainer: Yifan Zhang <yfzhang@nevada.unr.edu>
Description: A single-cell trajectory inference method using 'Autoencoder' and Minimum Spanning Tree (MST) from high dimensional 'scRNA-Seq' data. The software run clustering methods six times using 'scDHA' with the number of clusters set from 6 to 10. Then, the 'scTEP' calculates pseudotime based on multiple clustering results. Lastly, the 'scTEP' generates trajectory using MST algorithm and fine-tunes it according to the pseudotime of clusters.
License: LGPL
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Depends: R (>= 3.6.0)
Imports: stats, dplyr, igraph, scDHA, foreach, BiocGenerics, Matrix,
        SummarizedExperiment, doParallel, ggsci, psych, tibble, rlang,
        SingleCellExperiment
RoxygenNote: 7.2.1
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2022-09-25 20:14:33 UTC; yifanzhang
Author: Yifan Zhang [aut, cre],
  Duc Tran [aut],
  Tin Nguyen [fnd],
  Sergiu M. Dascalu [fnd],
  Frederick C. Harris, Jr. [fnd]
Repository: CRAN
Date/Publication: 2022-09-26 13:10:02 UTC
