A class for representing t-statistics for smoothed whole-genome bisulfite sequencing data.
The genomic locations as an object of class
The statistics, as a matrix-like object (see 'Details' below).
A list of parameters.
The 'stats' matrix-like object will be coerced to a
DelayedMatrix object; see
?DelayedArray::DelayedMatrix for the full list of
supported matrix-like objects. We recommend using matrix objects
for in-memory storage of data and HDF5Matrix for on-disk
storage of data.
Objects can be created by calls of the form
However, usually objects are returned by
not constructed by the user..
This is a DelayedMatrix object with columns representing various statistics for methylation loci along the genome.
Object of class
list. A list of
parameters representing how the t-statistics were computed.
Object of class
GRanges giving genomic
The subsetting operator; one may only subset in one dimension, corresponding to methylation loci.
The show method.
This class extends
hasGRanges and therefore inherits a number
GRanges methods that operate on the
used for accessing and setting the genomic locations and also do
Package version 1.11.1 introduced a new version of representing
‘BSseqTstat’ objects. You can update old serialized (saved)
objects by invoking
x <- updateObject(x).
Kasper Daniel Hansen [email protected]
The package vignette(s).
hasGRanges for accessing
the genomic locations.
BSmooth.tstat for a function
that returns objects of class
for a function that computes DMRs based on the t-statistics. Also see
BS.cancer.ex.tstat for an example of the
class in the bsseqData package.
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