ppi.matchPDB: PPI: Match PDB

In egmg726/crisscrosslinker: An R package for protein interaction analysis

Description

This function matches combined data to PDB files.

Usage

ppi.matchPDB(
  xlink_df,
  fasta_file,
  pdb_numbering = FALSE,
  pdb_directory = NULL,
  pdb_match_vector = NULL,
  csv_pdb_input_file = NULL,
  fasta_names_to_generate_all_2d_structures = NULL,
  protein_alternative_names_dict = NULL,
  download_pdb = TRUE,
  file_type_2d = "single_dot"
)

Arguments

xlink_df	data.frame() as created by ppi.combineData()
fasta_file	FASTA file as loaded by seqinr::read.fasta()
pdb_numbering	If TRUE, will number the
pdb_directory	pdb_directory
pdb_match_vector	pdb_match_vector
csv_pdb_input_file	csv_pdb_input_file
fasta_names_to_generate_all_2d_structures	fasta_names_to_generate_all_2d_structures
protein_alternative_names_dict	protein_alternative_names_dict
file_type_2d	file_type_2d

egmg726/crisscrosslinker documentation built on Jan. 23, 2021, 1:50 a.m.