How to use the R language software package proteus for quantitative proteome analysis
This article is about how to use proteus, the R language package for quantitative proteome analysis. The editor thinks it is very practical, so share it with you as a reference and follow the editor to have a look.
R software package proteus for quantitative proteome analysis
After the proteome data were identified and quantitatively analyzed by maxquant, the differential expression analysis of proteins was needed. At present, most of the analysis software is based on windows, which is not convenient for automation.
In order to facilitate automatic analysis, an R-packet proteus can be used. The download address of the software package is https://github.com/bartongroup/Proteus
1. Software package installation
Because the source code of the package is on github, you need to install it with devtools. You can check the documentation on github for installation. The installation code is as follows.
Install.packages ("devtools") devtools::install_github ("bartongroup/proteusLabelFree") devtools::install_github ("bartongroup/proteusTMT") devtools::install_github ("bartongroup/proteusSILAC")
two。 Supported data quantification methods
At present, the R package only supports three types of quantitative methods, namely: Label Free, TMT and SILAC. Quantification of itraq tags is not supported yet.
3. Usage
How to use it, you can refer to the documentation for the use of the software package. To view the TMT-related analysis documents, you can do the following:
Vignette ("TMT", package= "proteus") Thank you for reading! This is the end of the article on "how to use the R language package proteus for quantitative proteome analysis". I hope the above content can be of some help to you, so that you can learn more knowledge. if you think the article is good, you can share it for more people to see!
