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README.md

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    • README.md 994 B

    ChIPflowR

    How to install ChIPflowR?

    In addition to the ChIPflowR package itself, the workflow requires the installation of several packages: DESeq2, limma, knitr... (all available online, see the dedicated webpages).

    To install the ChIPflowR package from GitLab, open a R session and:

    • Install devtools with install.packages("devtools") (if not installed yet)

    • Notes:

      • Ubuntu users may have to install some libraries (libxml2-dev, libcurl4-openssl-dev and libssl-dev) to be able to install DESeq2 and devtools
      • Some users may have to install the pandoc and pandoc-citeproc libraries to be able to generate the final HTML reports

    • For Windows users only, install Rtools or check that it is already installed (needed to build the package)

    • Run devtools::install_gitlab(repo="hub/chipflowr", host="gitlab.pasteur.fr", build_vignettes=TRUE)

    ChIPflowR is part of https://gitlab.pasteur.fr/hub/epeak/