To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SEPA")
In most cases, you don't need to download the package archive at all.
SEPA
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SEPA
Bioconductor version: Release (3.4)
Given single-cell RNA-seq data and true experiment time of cells or pseudo-time cell ordering, SEPA provides convenient functions for users to assign genes into different gene expression patterns such as constant, monotone increasing and increasing then decreasing. SEPA then performs GO enrichment analysis to analysis the functional roles of genes with same or similar patterns.
Author: Zhicheng Ji, Hongkai Ji
Maintainer: Zhicheng Ji <zji4 at jhu.edu>
Citation (from within R,
enter citation("SEPA")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SEPA")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SEPA")
| R Script | SEPA: Single-Cell Gene Expression Pattern Analysis | |
| Reference Manual |
Details
| biocViews | GO, GUI, GeneExpression, Software, Visualization |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.2 (R-3.2) (1.5 years) |
| License | GPL(>=2) |
| Depends | R (>= 2.10.0) |
| Imports | ggplot2, shiny, topGO, segmented, reshape2, org.Hs.eg.db, org.Mm.eg.db |
| LinkingTo | |
| Suggests | knitr |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | SEPA_1.4.0.tar.gz |
| Windows Binary | SEPA_1.4.0.zip |
| Mac OS X 10.9 (Mavericks) | SEPA_1.4.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/SEPA/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/SEPA/ |
| Package Downloads Report | Download Stats |
Documentation »
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