rbd.makeSeqHitList: Make sequence hit list

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

Description

This function creates a hit list of significant XL in UV XL-MS dataset

Usage

rbd.makeSeqHitList(
  fasta_file,
  experiment_directory = NULL,
  file_format = NULL,
  cutoff_score = 20,
  RK.cleavage = TRUE,
  files.list = NULL
)

Arguments

fasta_file	FASTA file as loaded by seqinr::read.fasta()
experiment_directory	Directory where experiment files are. If NULL, defaults to current directory using getwd().
file_format	Can be either 'csv' or 'xlsx', the suffix to the experiment files
cutoff_score	Cutoff for Andromeda score. Defaults to 20.
RK.cleavage	If TRUE, will make sure that the cleavage sites alternate between R and K.
files.list	If uploading a list of files directly instead of the directory, list the files with the appropriate paths.

Author(s)

Emma Gail

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