FastqQA-class: Quality assessment of fastq files and ShortReadQ objects
In ShortRead: FASTQ input and manipulation

Description Objects from the Class Slots Extends Methods Author(s) See Also Examples

These classes contains a list-like structure with summary descriptions derived from visiting one or more fastq files, or from a ShortReadQ object.

Objects of the class are usually produced by a qa method.

.srlist:: Object of class "list", containing data frames or lists of data frames summarizing the results of qa.

Class "SRList", directly. Class ".QA", directly. Class ".SRUtil", by class "SRList", distance 2. Class ".ShortReadBase", by class ".QA", distance 2.

Accessor methods are inherited from the SRList class.

Additional methods defined on this class are:

report: signature(x="FastqQA", ..., dest=tempfile(), type="html"): produces HTML files summarizing QA results. dest should be a directory.
report: signature(x="ShortReadQA", ..., dest=tempfile(), type="html"): produces HTML files summarizing QA results. dest should be a directory.

Martin Morgan <mtmorgan@fhcrc.org>

qa.