ppi.matchPDB2: PPI Match PDB 2

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

Description

This function is the newer version of ppi.matchPDB()

Usage

ppi.matchPDB2(
  xlink.df,
  fasta_file,
  alignIDs,
  uniprot2pdb = TRUE,
  dist.histogram = TRUE
)

Arguments

xlink.df	A data.frame made by ppi.combineData()
fasta_file	Name of fasta file or loaded fasta file by seqinr::read.fasta().
alignIDs	A data.frame containing the columns "ProteinName", "UniProtID", and "PDB"
uniprot2pdb	If TRUE, will align to the UniProt sequence before aligning to the PDB. This parameter should be selected if the sequences used are not exactly UniProt (such as a slightly different N-terminal), but are relatively similar.
dist.histogram	dist.histogram

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