add_RFLP: Add RFLP enzymes to iSTOP data

In CicciaLab/iSTOP: iSTOP - Induced STOP Experiment Design

Description

Add RFLP enzymes to iSTOP data

Usage

add_RFLP(iSTOP, recognizes = "c", width = 150, enzymes = NULL, cores = 1)

Arguments

iSTOP	A dataframe resulting from locate_PAM.
recognizes	The base recognized by the enzyme. One of "c" or "t". In terms of base editing, "t" will return enzymes that only cut after editing, whereas "c" will return enzymes that only cut before editing.
width	An integer specifiying range of unique cutting.
enzymes	A dataframe of enzymes considered. Defaults to NULL which will use an enzyme dataset included in the iSTOP package.
cores	Number of cores to use with pbapply

Details

This function only works if changed base can be distinguished. Current strategy is to mark the changed base by converting it to lower case, and constructing an enzymes table that has each corresponding base chaned to lowercase. See enzymes definition below for more information.

CicciaLab/iSTOP documentation built on May 9, 2021, 4:55 p.m.