MSstatsPTM
Post Translational Modification (PTM) Significance Analysis in shotgun mass spectrometry-based proteomic experiments
Install / Use
/learn @Vitek-Lab/MSstatsPTMREADME
MSstatsPTM
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MSstatsPTM provides general statistical methods for quantitative characterization of post-translational modifications (PTMs). Supports DDA, DIA, and tandem mass tag (TMT) labeling. Typically, the analysis involves the quantification of PTM sites (i.e., modified residues) and their corresponding proteins, as well as the integration of the quantification results. MSstatsPTM provides functions for summarization, estimation of PTM site abundance, and detection of changes in PTMs across experimental conditions.
Installation
The most recent version of the package is available on Bioconductor:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MSstatsPTM")
Optionally, the package can be installed directly from Github:
devtools::install_github("Vitek-Lab/MSstatsPTM", build_vignettes = TRUE)
Contributing
We welcome contributions from the community. For details on how to contribute to the development of MSstatsPTM, please refer to the CONTRIBUTING file.
