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Michael edited this page Jan 17, 2017
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SCONE (Single-Cell Overview of Normalized Expression), a package for single-cell RNA-seq data quality control (QC) and normalization. This data-driven framework uses summaries of expression data to assess the efficacy of normalization workflows.
The easiest way to install the scone
package is to execute to following R commands:
source("https://bioconductor.org/biocLite.R")
biocLite("devtools")
biocLite("YosefLab/scone", ref = "v0.99.0", dependencies=TRUE)
Note that the master
branch of scone
is ahead of the current release v0.99.0
, and it requires both R-devel (>= 3.4) and Bioconductor devel.
To gain access to the full scone
repository, you may use git clone
command in your terminal:
git clone https://github.com/YosefLab/scone.git
and then checkout the latest release:
cd scone
git checkout v0.99.0
The release may be installed using the R command line utility:
R CMD install .
Within the git repo, users can access the ezbake.R
script
./scripts/ezbake.R
- R (R version 3.3)
- See
DESCRIPTION
file for additional R library dependencies