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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("cellTree")
In most cases, you don't need to download the package archive at all.
cellTree
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Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure
Bioconductor version: Release (3.4)
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.
Author: David duVerle [aut, cre], Koji Tsuda [aut]
Maintainer: David duVerle <dave at cb.k.u-tokyo.ac.jp>
Citation (from within R,
enter citation("cellTree")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("cellTree")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("cellTree")
| R Script | Inference and visualisation of Single-Cell RNA-seq Data data as a hierarchical tree structure | |
| Reference Manual |
Details
| biocViews | BiomedicalInformatics, CellBiology, Clustering, FunctionalGenomics, GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, Microarray, RNASeq, Sequencing, Software, SystemsBiology, TimeCourse, Visualization |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.3 (R-3.3) (1 year) |
| License | Artistic-2.0 |
| Depends | R (>= 3.3), topGO |
| Imports | topicmodels, slam, maptpx, igraph, xtable, gplots |
| LinkingTo | |
| Suggests | BiocStyle, knitr, HSMMSingleCell, biomaRt, org.Hs.eg.db, Biobase, tools |
| SystemRequirements | |
| Enhances | |
| URL | http://tsudalab.org |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | cellTree_1.4.0.tar.gz |
| Windows Binary | cellTree_1.4.0.zip |
| Mac OS X 10.9 (Mavericks) | cellTree_1.4.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/cellTree/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/cellTree/ |
| Package Downloads Report | Download Stats |
Documentation »
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