A Shiny Application for Quality Control, Filtering and Trimming of FASTQ Files

Documentation for package ‘FastqCleaner’ version 1.11.0

adapter_filter	Remove full and partial adapters from a ShortReadQ object
check_encoding	Check quality encoding
complex_filter	Remove sequences with low complexity
fixed_filter	Remove a fixed number of bases of a ShortReadQ object from 3' or 5'
inject_letter_random	Inject a letter in a set of sequences at random positions
launch_fqc	Launch FastqCleaner application
length_filter	Filter sequences of a FASTQ file by length
n_filter	Remove sequences with non-identified bases (Ns) from a ShortReadQ object
qmean_filter	Filter sequences by their average quality
random_length	Create a named object with random sequences and qualities
random_qual	Create random qualities for a given encoding
random_seq	Create random sequences
seq_filter	Remove a set of sequences
seq_names	Create sequences names
trim3q_filter	Filter sequences with low quality in 3' tails
unique_filter	Remove duplicated sequences in a FASTQ file