fastx_learn command
See also
unoise command
Determines error rates of amplicon reads. Input is a set of unique
sequences with size=annotations. The input file is
usually generated by the fastx_uniques command
with the -sizeout option. It can be in FASTQ or FASTA format. If FASTQ format is
provided, then the expected errors predicted by the
Q scores are compared with the measured error rates, and the accuracy of the Q
scores is measured by comparing the observed and predicted error rate for each
value of Q. Click here for an example report.
This command is useful for checking the error rate after expected error quality filtering, which assumes that the Q scores are accurate. It does not use Q scores so gives an indpendent check.
The -output option specifies a text file to contain the report.
Example
usearch -fastx_learn uniques.fastq -output learn.txt