README.md

In martinry/proteasy: Protease Mapping

Introduction

This package utilizes data derived from the MEROPS database and facilitates retrieving proteolytic enzymes data by mapping peptide termini to known sites where a protease cleaves.

Installation

Using devtools

install.packages("devtools")
library("devtools")
install_github("martinry/proteasy")

Using Bioconductor

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("proteasy")

Usage

# Example 1
searchSubstrate(protein = "P01042", summarize = TRUE)

# Example 2
searchProtease(protein = "P39900", summarize = TRUE)

# Example 3
protein <- c("P02671", "P02671", "P68871", "P01011")
peptide <- c("FEEVSGNVSPGTR", "FVSETESR", "LLVVYPW", "ITLLSAL")

res <- findProtease(protein = protein, peptide = peptide,
organism = "Homo sapiens")

substrates(res)
proteases(res)
cleavages(res)

# Example 4

browseProtease("P07339", keytype = "UniprotID") # (opens web browser)

martinry/proteasy documentation built on Feb. 5, 2024, 4:04 p.m.