rbd.getBSfromDF: RBD: Get binding sequences from Dataframe

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

Description

Retrieves the binding sequences based on the information given in the dataframe and includes them as part of the output.

Usage

rbd.getBSfromDF(rbd.df, fasta = NULL, cleave_offset = 4)

Arguments

rbd.df	Data.frame containing the columns protID, trypticPeptide, and enzyme.
fasta	Name of fasta file or loaded fasta file by seqinr::read.fasta(). Defaults to NULL.
cleave_offset	Number of amino acids (AAs) that have to be between the AAs cut by the enzyme. Defaults to 4 as defined by the original RBDmap experiment.

Value

The original rbd.df with 3 columns added: the proteolytic fragment, the fragment start, and fragment end.

Author(s)

Emma Gail

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