rbd.alignBS: RBD: Align Binding Sequences to Uniprot and PDB

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

Description

This function aligns the

Usage

rbd.alignBS(
  rbd.df,
  alignIDs,
  alignTo = c("pdb", "uniprot", "fasta"),
  uniprot2pdb = TRUE,
  allowPartialBS = FALSE
)

Arguments

rbd.df	Output from rbd.getBSfromDF()
alignIDs	alignIDs containing columns of protein names, UniProt and/or PDB identifiers
alignTo	What the sequences should be aligned to. Choose between 'pdb' and 'uniprot'
uniprot2pdb	Boolean, defaults to TRUE. This will align to Uniprot sequence before PDB and using the uniprot.PDBmap function to improve alignment accuracy. Highly recommended for PDB alignments.
allowpartialBS	Boolean, defaults to FALSE. will allow partial matches of binding sequences to PDB/UniProt sequences

Author(s)

Emma Gail

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