plotQualityProfile

(Required). <code>character(1)</code>.
The file path to the fastq or fastq.gz file.

(Optional). Default 1,000,000.
The number of records to sample from the fastq file.


This function plots a visual summary of the distribution of quality scores
as a function of sequence position for the input fastq file.


The dada2 package provides "OTU picking" functionality, but instead
of picking OTUs the DADA2 algorithm exactly infers samples sequences. The dada2
pipeline starts from demultiplexed fastq files, and outputs inferred sample
sequences and associated abundances after removing substitution and chimeric
errors. Taxonomic classification is also available via a native implementation
of the RDP classifier method.

Benjamin Callahan

dada2

Accurate, high-resolution sample inference from amplicon
sequencing data

plotQualityProfile function

This function plots a visual summary of the distribution of quality scores
as a function of sequence position for the input fastq file.

plotQualityProfile: Plot quality profile of a fastq file.

Description

Usage

Arguments

Value

Examples