RocheSet-class: (Legacy) Roche (454) experiment-wide data container
In ShortRead: FASTQ input and manipulation

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

This class is meant to coordinate all data in a Roche (454) experiment. See SRSet for additional details.

Create objects from this class using one of the RocheSet methods documented below

sourcePath:: Object of class "RochePath" The file system location of the data used in this experiment.
readIndex:: Object of class "integer" indexing reads included in the experiment; see SRSet for details on data representation in this class.
readCount:: Object of class "integer" containing the number of reads associated with each sample; see SRSet for details on data representation in this class.
phenoData:: Object of class "AnnotatedDataFrame" with as many rows as there are samples, containing information on experimental design.
readData:: Object of class "AnnotatedDataFrame" containing as many rows as there are reads, containing information on each read in the experiment.

Class "SRSet", directly. Class ".Roche", directly. Class ".ShortReadBase", by class "SRSet", distance 2. Class ".ShortReadBase", by class ".Roche", distance 2.

No methods defined with class "RocheSet" in the signature; see SRSet for inherited methods.

Michael Lawrence <mflawrence@fhcrc.org>

SRSet