recipe bioconductor-msstatslip

LiP Significance Analysis in shotgun mass spectrometry-based proteomic experiments






Tools for LiP peptide and protein significance analysis. Provides functions for summarization, estimation of LiP peptide abundance, and detection of changes across conditions. Utilizes functionality across the MSstats family of packages.

package bioconductor-msstatslip

(downloads) docker_bioconductor-msstatslip



depends bioconductor-biostrings:


depends bioconductor-biostrings:


depends bioconductor-msstats:


depends bioconductor-msstats:


depends bioconductor-msstatsconvert:


depends bioconductor-msstatsconvert:


depends bioconductor-msstatsptm:


depends bioconductor-msstatsptm:


depends libblas:


depends libgcc-ng:


depends liblapack:


depends libstdcxx-ng:


depends r-base:


depends r-checkmate:

depends r-data.table:

depends r-dplyr:

depends r-factoextra:

depends r-ggplot2:

depends r-ggpubr:

depends r-gridextra:

depends r-purrr:

depends r-rcpp:

depends r-scales:

depends r-stringr:

depends r-tibble:

depends r-tidyr:

depends r-tidyverse:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-msstatslip

and update with::

   mamba update bioconductor-msstatslip

To create a new environment, run:

mamba create --name myenvname bioconductor-msstatslip

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bioconductor-msstatslip/tags`_ for valid values for ``<tag>``)

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