cellTree: Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure

This packages computes a Latent Dirichlet Allocation (LDA) model of single-cell RNA-seq data and builds a compact tree modelling the relationship between individual cells over time or space.

AuthorDavid duVerle [aut, cre], Koji Tsuda [aut]
Date of publicationNone
MaintainerDavid duVerle <dave@cb.k.u-tokyo.ac.jp>
LicenseArtistic-2.0
Version1.4.0
http://tsudalab.org

View on Bioconductor

Files

cellTree/DESCRIPTION
cellTree/NAMESPACE
cellTree/R
cellTree/R/cellTree.R cellTree/R/private_functions.R cellTree/R/utils.R
cellTree/REFERENCES.bib
cellTree/build
cellTree/build/vignette.rds
cellTree/data
cellTree/data/HSMM_lda_model.rda
cellTree/examples
cellTree/examples/cell.ordering.table.example.R
cellTree/examples/compute.backbone.tree.example.R
cellTree/examples/compute.go.enrichment.example.R
cellTree/examples/compute.lda.example.R
cellTree/examples/ct.plot.go.dag.example.R
cellTree/examples/ct.plot.grouping.example.R
cellTree/examples/ct.plot.heatmap.example.R
cellTree/examples/ct.plot.topics.example.R
cellTree/examples/get.cell.dists.example.R
cellTree/examples/go.results.to.latex.example.R
cellTree/inst
cellTree/inst/CITATION
cellTree/inst/doc
cellTree/inst/doc/cellTree-vignette.R
cellTree/inst/doc/cellTree-vignette.Rnw
cellTree/inst/doc/cellTree-vignette.pdf
cellTree/man
cellTree/man/HSMM_lda_model.Rd cellTree/man/cell.ordering.table.Rd cellTree/man/cellTree-package.Rd cellTree/man/compute.backbone.tree.Rd cellTree/man/compute.go.enrichment.Rd cellTree/man/compute.lda.Rd cellTree/man/ct.plot.go.dag.Rd cellTree/man/ct.plot.grouping.Rd cellTree/man/ct.plot.heatmap.Rd cellTree/man/ct.plot.topics.Rd cellTree/man/get.cell.dists.Rd cellTree/man/go.results.to.latex.Rd
cellTree/vignettes
cellTree/vignettes/cellTree-vignette.Rnw

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