Returns dataframe containing information from .ab1 files from Sanger sequencing.

Description

ab1Files2SequenceDF is a function which reads .ab1 files from Sanger Sequencing into data frame containing columns for file path, sample info, primer info, consensus sequence and a primary and secondary basecall sequence produced from the Bioconductor package sanderseqR's makeBaseCalls function.

Usage

ab1Files2SequenceDF(file.directory= "...", basecall.ratio = 0.33, file.type = ".ab1", recursive.dir = TRUE)

Arguments:

file.directory The directory containing the sequencing files

basecall.ratio = 0.33 A variable passed to the makeBaseCalls function. see ?makeBaseCalls for details.

file.type = ".ab1" File extention of sequencing files.

recursive.dir = TRUE Are sequencing files stored in subdirectory.

Examples:

ab1Files2SequenceDF(file.directory="sangerSeq/")

if files are in subdirectories

ab1Files2SequenceDF(file.directory="sangerSeq/", recursive.dir = TRUE)

Author(s)

CJ "Jake" Saunders