Description Usage Arguments Value See Also Examples
Get or set the start, end, width, or single positions stored in an object.
NOTE: This man page is for the start
, `start<-`
,
end
, `end<-`
, width
, `width<-`
, and
pos
S4 generic functions defined in the BiocGenerics
package.
See ?stats::start
for the start
and end
S3 generics defined in the stats package.
1 2 3 4 5 6 7 8 9 10 |
x |
For the For the |
... |
Additional arguments, for use in specific methods. |
value |
The start, end, or width values to set on |
See specific methods defined in Bioconductor packages.
stats::start
in the stats package
for the start
and end
S3 generics.
showMethods
for displaying a summary of the
methods defined for a given generic function.
selectMethod
for getting the definition of
a specific method.
start,IRanges-method in the IRanges
package for examples of specific start
, end
, and
width
methods (defined for IRanges objects).
pos,UnstitchedIPos-method in the IRanges
package for an example of a specific pos
method
(defined for UnstitchedIPos objects).
BiocGenerics for a summary of all the generics defined in the BiocGenerics package.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 | ## start() getter:
start
showMethods("start")
library(IRanges)
showMethods("start")
selectMethod("start", "IRanges") # start() getter for IRanges objects
## start() setter:
`start<-`
showMethods("start<-")
selectMethod("start<-", "IRanges") # start() setter for IRanges objects
## end() getter:
end
showMethods("end")
selectMethod("end", "IRanges") # end() getter for IRanges objects
## end() setter:
`end<-`
showMethods("end<-")
selectMethod("end<-", "IRanges") # end() setter for IRanges objects
## width() getter:
width
showMethods("width")
selectMethod("width", "IRanges") # width() getter for IRanges objects
## width() setter:
`width<-`
showMethods("width<-")
selectMethod("width<-", "IRanges") # width() setter for IRanges objects
## pos() getter:
pos
showMethods("pos")
selectMethod("pos", "UnstitchedIPos") # pos() getter for UnstitchedIPos
# objects
|
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:stats’:
IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
anyDuplicated, append, as.data.frame, basename, cbind, colnames,
dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which.max, which.min
standardGeneric for "start" defined from package "stats"
function (x, ...)
standardGeneric("start")
<environment: 0x56213133e130>
Methods may be defined for arguments: x
Use showMethods("start") for currently available ones.
Function: start (package stats)
x="ANY"
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: ‘S4Vectors’
The following object is masked from ‘package:base’:
expand.grid
Function: start (package stats)
x="ANY"
x="CompressedRangesList"
x="IRanges"
x="NCList"
x="NCLists"
x="PartitioningByEnd"
x="PartitioningByWidth"
x="Pos"
x="Ranges"
x="RangesList"
x="Rle"
x="SimpleViewsList"
x="Views"
Method Definition:
function (x, ...)
x@start
<bytecode: 0x562133f27970>
<environment: namespace:IRanges>
Signatures:
x
target "IRanges"
defined "IRanges"
standardGeneric for "start<-" defined from package "BiocGenerics"
function (x, ..., value)
standardGeneric("start<-")
<bytecode: 0x562131398df8>
<environment: 0x562131398480>
Methods may be defined for arguments: x
Use showMethods("start<-") for currently available ones.
Function: start<- (package BiocGenerics)
x="IntegerRangesList"
x="IRanges"
x="Views"
Method Definition:
function (x, ..., value)
.set_IRanges_start(x, value)
<bytecode: 0x562133eaadd8>
<environment: namespace:IRanges>
Signatures:
x
target "IRanges"
defined "IRanges"
standardGeneric for "end" defined from package "stats"
function (x, ...)
standardGeneric("end")
<environment: 0x56212e56b938>
Methods may be defined for arguments: x
Use showMethods("end") for currently available ones.
Function: end (package stats)
x="ANY"
x="CompressedRangesList"
x="NCList"
x="NCLists"
x="PartitioningByEnd"
x="PartitioningByWidth"
x="Pos"
x="Ranges"
x="RangesList"
x="Rle"
x="SimpleViewsList"
Method Definition:
function (x, ...)
{
width(x) - 1L + start(x)
}
<bytecode: 0x5621324a29c0>
<environment: namespace:IRanges>
Signatures:
x
target "IRanges"
defined "Ranges"
standardGeneric for "end<-" defined from package "BiocGenerics"
function (x, ..., value)
standardGeneric("end<-")
<bytecode: 0x56212e9edb28>
<environment: 0x56212f134c40>
Methods may be defined for arguments: x
Use showMethods("end<-") for currently available ones.
Function: end<- (package BiocGenerics)
x="IntegerRangesList"
x="IRanges"
x="Views"
Method Definition:
function (x, ..., value)
.set_IRanges_end(x, value)
<bytecode: 0x562132673e00>
<environment: namespace:IRanges>
Signatures:
x
target "IRanges"
defined "IRanges"
standardGeneric for "width" defined from package "BiocGenerics"
function (x)
standardGeneric("width")
<bytecode: 0x56212e6b98f0>
<environment: 0x56212e6c0108>
Methods may be defined for arguments: x
Use showMethods("width") for currently available ones.
Function: width (package BiocGenerics)
x="CompressedRangesList"
x="IRanges"
x="MaskCollection"
x="NCList"
x="NCLists"
x="PartitioningByEnd"
x="PartitioningByWidth"
x="Pos"
x="Ranges"
x="RangesList"
x="Rle"
x="SimpleViewsList"
x="Views"
Method Definition:
function (x)
x@width
<bytecode: 0x56213492e638>
<environment: namespace:IRanges>
Signatures:
x
target "IRanges"
defined "IRanges"
standardGeneric for "width<-" defined from package "BiocGenerics"
function (x, ..., value)
standardGeneric("width<-")
<bytecode: 0x56212e60cd08>
<environment: 0x56212e6142b0>
Methods may be defined for arguments: x
Use showMethods("width<-") for currently available ones.
Function: width<- (package BiocGenerics)
x="IntegerRangesList"
x="IRanges"
x="Views"
Method Definition:
function (x, ..., value)
.set_IRanges_width(x, value)
<bytecode: 0x562131674150>
<environment: namespace:IRanges>
Signatures:
x
target "IRanges"
defined "IRanges"
standardGeneric for "pos" defined from package "BiocGenerics"
function (x)
standardGeneric("pos")
<bytecode: 0x562130886c68>
<environment: 0x5621308869b8>
Methods may be defined for arguments: x
Use showMethods("pos") for currently available ones.
Function: pos (package BiocGenerics)
x="CompressedPosList"
x="IPos"
x="PosList"
x="UnstitchedIPos"
Method Definition:
function (x)
x@pos
<bytecode: 0x5621380af758>
<environment: namespace:IRanges>
Signatures:
x
target "UnstitchedIPos"
defined "UnstitchedIPos"
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