MIDPrimerFinder: MID Primer Design

In IDEELResearch/SeekDeepRANN: Basic Tool for Annotating the Output of SeekDeep for Exonic Regions

Description

This will produces MIDs

Usage

MIDPrimerFinder(design_fasta = NULL, MID2MIDmatchesAllowed = NULL,
  MIDlength = NULL, MIDhomopolymerallowance = NULL,
  MID2targetmismatchesAllowed = NULL, MIDnum = NULL)

Arguments

design_fasta	is expected to have the forward, reverse, and target gene in it. Must have 'forward' and 'reverse' in the contig names for the forward and reverse primers
MID2targetmismatchesAllowed	is the number of base-pair mismatches allowed in the MID before it would bind to ANY place on the target gene

Details

This is a brute-force approach with recursion as the number of new MIDs proposed is based on "how close we are to solving the problem" with the current sit of MIDs

Author(s)

Nick Brazeau

IDEELResearch/SeekDeepRANN documentation built on July 17, 2019, 3:21 p.m.