BowtieQA-class: (Legacy) Quality assessment summaries from Bowtie files

In ShortRead: FASTQ input and manipulation

Description

This class contains a list-like structure with summary descriptions derived from visiting one or more Bowtie files.

Objects from the Class

Objects of the class are usually produced by a qa method, with the argument type="Bowtie".

Slots

.srlist:

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

Extends

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

Methods

Accessor methods are inherited from the SRList class.

report

signature(x="BowtieQA", ..., dest=tempfile(), type="html"): produces an html file summarizing the QA results.

Author(s)

Martin Morgan <[e-mail]>

See Also

qa.

Examples

showClass("BowtieQA")

ShortRead documentation built on Nov. 8, 2020, 8:02 p.m.