README.md
In charles-plessy/smallCAGEqc: ad-hoc QC functions for shallow-sequenced test CAGE libraries
smallCAGEqc
smallCAGEqc is a R package collecting scripts for the analysis of transcriptome
libraries at RIKEN CLST/DGT ex-OSC. It makes strong assumptions on our
infrastructure and hardcodes paths for key files, therefore, although it
shared on GitHub, there is really no guaranty that it will be useful to
you if we are not working together already. It installs a Rmarkdown
template for analyses on Rstudio.
Need help ?
Install the package (see below) and run the following:
help(package=smallCAGEqc)
Installation on Linux computers
From GitHub in R (recommended)
devtools::install_github('charles-plessy/smallCAGEqc', upgrade_dependencies = FALSE)
You may need to enable the Bioconductor repository by running setRepositories() first.
From a Git clone.
git clone https://github.com/charles-plessy/smallCAGEqc.git
R CMD INSTALL smallCAGEqc
In case of error no permission to install to directory
‘/usr/local/lib/R/site-library’, create a local R directory with the following
command.
```
/usr/bin/Rscript -e 'dir.create(Sys.getenv("R_LIBS_USER"), recursive=TRUE)'
````
charles-plessy/smallCAGEqc documentation built on May 13, 2019, 3:31 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
smallCAGEqc
smallCAGEqc is a R package collecting scripts for the analysis of transcriptome libraries at RIKEN CLST/DGT ex-OSC. It makes strong assumptions on our infrastructure and hardcodes paths for key files, therefore, although it shared on GitHub, there is really no guaranty that it will be useful to you if we are not working together already. It installs a Rmarkdown template for analyses on Rstudio.
Need help ?
Install the package (see below) and run the following:
help(package=smallCAGEqc)
Installation on Linux computers
From GitHub in R (recommended)
devtools::install_github('charles-plessy/smallCAGEqc', upgrade_dependencies = FALSE)
You may need to enable the Bioconductor repository by running setRepositories() first.
From a Git clone.
git clone https://github.com/charles-plessy/smallCAGEqc.git
R CMD INSTALL smallCAGEqc
In case of error no permission to install to directory
‘/usr/local/lib/R/site-library’, create a local R directory with the following
command.
``` /usr/bin/Rscript -e 'dir.create(Sys.getenv("R_LIBS_USER"), recursive=TRUE)' ````
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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