read: Read in an SBML file (start here)

In rsbml: R support for SBML, using libsbml

Description

Read an SBML file into R.

Usage

rsbml_read(filename, text, dom = TRUE, strict = FALSE, schema = FALSE,
                  consistency = TRUE)

Arguments

filename	the name of the SBML file to parse
text	a string of SBML text to parse (instead of file)
dom	whether to convert directly to the S4 DOM (TRUE, the default) or leave as the internal SBMLDocument.
strict	whether to report warnings in addition to errors or not (FALSE, the default).
schema	whether to perform XML schema validation
consistency	whether to perform consistency checks; recommended but might cause performance deficiencies.

Value

a SBML object, or a SBMLDocument if dom is FALSE.

Author(s)

Michael Lawrence

Examples

  # Read an SBML file
  file <- system.file("sbml", "GlycolysisLayout.xml", package = "rsbml")
  doc <- rsbml_read(file)
  
  # Read an SBML string
  string <- paste(readLines(file),collapse="\n")
  doc <- rsbml_read(text = string)

rsbml documentation built on Nov. 8, 2020, 8:09 p.m.