manipulateObjects: Join, subset and manipulate ChIPprofile objects

In ThomasCarroll/soGGi: Visualise ChIP-seq, MNase-seq and motif occurrence as aggregate plots Summarised Over Grouped Genomic Intervals

Description

Join, subset and manipulate ChIPprofile objects

Usage

## S4 method for signature 'ChIPprofile'
c(x, ..., recursive = FALSE)

## S4 method for signature 'ChIPprofile'
rbind(x, ..., deparse.level = 1)

## S4 method for signature 'ChIPprofile'
cbind(x, ..., deparse.level = 1)

## S4 method for signature 'ChIPprofile,ANY,missing'
x[[i, j, ...]]

## S4 method for signature 'ChIPprofile'
x$name

Arguments

j	Should be missing
...	objects to be concatenated.
recursive	logical. If recursive = TRUE, the function recursively descends through lists (and pairlists) combining all their elements into a vector.
deparse.level	See ?base::cbind for a description of this argument.
x	object from which to extract element(s) or in which to replace element(s).
i	indices specifying elements to extract or replace. Indices are numeric or character vectors or empty (missing) or NULL. Numeric values are coerced to integer as by as.integer (and hence truncated towards zero). Character vectors will be matched to the names of the object (or for matrices/arrays, the dimnames): see ‘Character indices’ below for further details. For [-indexing only: i, j, ... can be logical vectors, indicating elements/slices to select. Such vectors are recycled if necessary to match the corresponding extent. i, j, ... can also be negative integers, indicating elements/slices to leave out of the selection. When indexing arrays by [ a single argument i can be a matrix with as many columns as there are dimensions of x; the result is then a vector with elements corresponding to the sets of indices in each row of i. An index value of NULL is treated as if it were integer(0).
name	A literal character string or a name (possibly backtick quoted). For extraction, this is normally (see under ‘Environments’) partially matched to the names of the object.

Value

A ChIPprofile object

Examples

data(chipExampleBig)
x <- c(chipExampleBig[[1]],chipExampleBig[[2]])
y <- rbind(chipExampleBig[[1]],chipExampleBig[[2]])

ThomasCarroll/soGGi documentation built on May 7, 2019, 8:40 a.m.