README.md

In zhuhaojie/fracpred:

fracpred

This R package is to predict the first dimension fractions containing target peptides in a 2D LC-MS/MS proteomics analysis.

To use the package, you first need to install the devtools and tidyverse packages.

install.packages(c("devtools", "tidyverse"))

Load the devtools package.

library(devtools)

Install the fracpred package from GitHub.

install_github("zhuhaojie/fracpred")

Load the fracpred package.

library(fracpred)

Use the "fracpred" function to predict the rentention times of the peptides of interest.

fracpred()

Please note that the CSV files should at least contain "Peptide Sequence" and "Peptide Retention Time" columns. The files can be exported from the Skyline software. Two demo CSV files can be found here.

"targetPeptidesContaining.csv": the results from a DDA experiment of a mixed human liver microsome and plasma sample "RT_prediction.csv": the results from a DDA experiment of a human plasma sample

You can try out these peptides NLSVEDAAR, RSTVAQLVK, AISESGVALTSVLVK, FTPPQPAEPWSFVK, ESQPLLGTVIDGMLLLK, NFLAFIQHLR

zhuhaojie/fracpred documentation built on May 6, 2020, 12:38 a.m.