read.sanger: Imports a .ab1 file from Applied Biosystems corresponding to...

In FSAtools: Fragment Analysis and Capillary Sequencing Tool Kit

Imports a .ab1 file from Applied Biosystems corresponding to Sanger sequencing

Description

This function parses a FSA/AB1 file using read.fsa, with few adjustments for Sanger sequencing experiments.

Usage

  read.sanger(file, channelOrder = NULL, guess.threshold = 0.3, processed = NA,
     lowess = FALSE, ...)

Arguments

file	Single character value, the name and path of the file to parse.
channelOrder	Character vector, providing 'A', 'C', 'G' and 'T' in the order of the used channels. If NULL, a guess will be attempted based on the called sequence.
guess.threshold	Single numeric value, setting the tolerance to use for channel guessing validation. Lower values mean higher chances to get an error for channel guessing failure.
processed	To be passed to read.fsa.
lowess	To be passed to read.fsa.
...	To be passed to read.fsa.

Value

A S3 object of class fsa

Author(s)

Sylvain Mareschal

See Also

read.fsa, read.abif

FSAtools documentation built on Aug. 19, 2023, 1:06 a.m.