rbd.makeSeqHitList: Make sequence hit list

Description Usage Arguments Author(s)

View source: R/pdb_functions2.R

Description

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

Usage

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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.