import_Omnipath_PTMS {OmnipathR}R Documentation

Import Omnipath post-translational modifications (PTMs)

Description

imports the PTMs database from http://omnipathdb.org/ptms

Usage

import_Omnipath_PTMS(
  from_cache_file = NULL,
  filter_databases = get_ptms_databases(),
  select_organism = 9606
)

Arguments

from_cache_file

path to an earlier data file

filter_databases

PTMs not reported in these databases are removed. See get_ptms_databases for more information

select_organism

PTMs are available for human, mouse and rat. Choose among: 9606 human (default), 10116 rat and 10090 Mouse

Value

A data frame containing the information about ptms

See Also

get_ptms_databases, import_Omnipath_Interactions

Examples

ptms = import_Omnipath_PTMS(filter_databases=c("PhosphoSite", "Signor"),
       select_organism=9606)
       

[Package OmnipathR version 1.0.1 Index]