S4 implementation of vectors and lists

Documentation for package ‘S4Vectors’ version 0.4.0

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A B C D E F G H I L M N O P Q R S T U V W X misc

-- A --

aggregate-method	Common operations on Rle objects
aggregate.Rle	Common operations on Rle objects
Annotated	Annotated class
Annotated-class	Annotated class
append-method	Vector objects
as.character-method	Rle objects
as.character-method	Vector objects
as.complex-method	Rle objects
as.complex-method	Vector objects
as.data.frame-method	DataFrame objects
as.data.frame-method	List objects
as.data.frame-method	Rle objects
as.data.frame-method	Vector objects
as.data.frame.DataFrame	DataFrame objects
as.data.frame.List	List objects
as.data.frame.Rle	Rle objects
as.data.frame.Vector	Vector objects
as.double-method	Vector objects
as.env	DataTable objects
as.env-method	DataTable objects
as.env-method	List objects
as.env-method	Vector objects
as.factor-method	Rle objects
as.integer-method	Rle objects
as.integer-method	Vector objects
as.list-method	List objects
as.list-method	Rle objects
as.list-method	SimpleList objects
as.list.List	List objects
as.list.Rle	Rle objects
as.list.SimpleList	SimpleList objects
as.logical-method	Rle objects
as.logical-method	Vector objects
as.matrix-method	DataFrame objects
as.matrix-method	Hits objects
as.numeric-method	Rle objects
as.numeric-method	Vector objects
as.raw-method	Rle objects
as.raw-method	Vector objects
as.table-method	Hits objects
as.vector-method	Rle objects
as.vectorORfactor	Rle objects
as.vectorORfactor-method	Rle objects

-- B --

by-method

DataTable objects

-- C --

c-method	Rle objects
c-method	SimpleList objects
cbind-method	DataTable objects
chartr-method	Common operations on Rle objects
class:DataFrame	DataFrame objects
class:DataTable	DataTable objects
class:DataTableORNULL	Vector objects
class:List	List objects
class:Rle	Rle objects
class:SimpleList	SimpleList objects
class:Vector	Vector objects
classNameForDisplay	Vector objects
classNameForDisplay-method	SimpleList objects
classNameForDisplay-method	Vector objects
coerce-method	DataFrame objects
coerce-method	List objects
coerce-method	Rle objects
coerce-method	SimpleList objects
coerce-method	Vector objects
colnames-method	DataFrame objects
colnames<--method	DataFrame objects
compare	Compare, order, tabulate vector-like objects
complete.cases-method	DataTable objects
Complex-method	Common operations on Rle objects
cor-method	Common operations on Rle objects
countMatches	Compare, order, tabulate vector-like objects
countMatches-method	Compare, order, tabulate vector-like objects
countQueryHits	Hits objects
countQueryHits-method	Hits objects
countSubjectHits	Hits objects
countSubjectHits-method	Hits objects
cov-method	Common operations on Rle objects

-- D --

DataFrame	DataFrame objects
DataFrame-class	DataFrame objects
DataTable	DataTable objects
DataTable-class	DataTable objects
DataTableORNULL	Vector objects
DataTableORNULL-class	Vector objects
diff-method	Common operations on Rle objects
diff.Rle	Common operations on Rle objects
dim-method	DataTable objects
dimnames-method	DataTable objects
dimnames<--method	DataTable objects
duplicated-method	DataTable objects
duplicated-method	Rle objects
duplicated-method	Compare, order, tabulate vector-like objects
duplicated.DataTable	DataTable objects
duplicated.Rle	Rle objects
duplicated.Vector	Compare, order, tabulate vector-like objects

-- E --

elementLengths	List objects
elementLengths-method	List objects
elementMetadata	Vector objects
elementMetadata-method	Vector objects
elementMetadata<-	Vector objects
elementMetadata<--method	Vector objects
elementType	List objects
elementType-method	List objects
end-method	Rle objects
endoapply	Common operations on List objects
endoapply-method	Common operations on List objects
endoapply-method	SimpleList objects
extractROWS-method	Hits objects
extractROWS-method	Vector objects

-- F --

Filter-method	Common operations on List objects
Find-method	Common operations on List objects
findMatches	Compare, order, tabulate vector-like objects
findMatches-method	Compare, order, tabulate vector-like objects
findRun	Rle objects
findRun-method	Rle objects
fixedColumnNames	Vector objects
fixedColumnNames-method	Vector objects

-- G --

gsub-method

Common operations on Rle objects

-- H --

Hits	Hits objects
Hits-class	Hits objects

-- I --

ifelse-method	Common operations on Rle objects
intersect-method	Rle objects
IQR-method	Common operations on Rle objects
is.na-method	DataTable objects
is.na-method	Rle objects
is.unsorted-method	Rle objects
isConstant	Test if a vector-like object is sorted
isConstant-method	Test if a vector-like object is sorted
isEmpty	List objects
isEmpty-method	List objects
isSorted	Test if a vector-like object is sorted
isSorted-method	Test if a vector-like object is sorted
isStrictlySorted	Test if a vector-like object is sorted
isStrictlySorted-method	Test if a vector-like object is sorted

-- L --

lapply-method	Common operations on List objects
lapply-method	SimpleList objects
length-method	Rle objects
length-method	SimpleList objects
length-method	Vector objects
levels-method	Common operations on Rle objects
levels.Rle	Common operations on Rle objects
levels<--method	Common operations on Rle objects
List	List objects
List-class	List objects
List-utils	Common operations on List objects

-- M --

mad-method	Common operations on Rle objects
mad.Rle	Common operations on Rle objects
Map-method	Common operations on List objects
match-method	Hits objects
match-method	Rle objects
Math-method	Common operations on Rle objects
Math2-method	Common operations on Rle objects
mcols	Vector objects
mcols-method	Vector objects
mcols<-	Vector objects
mcols<--method	Vector objects
mean-method	Common operations on Rle objects
mean.Rle	Common operations on Rle objects
median-method	Common operations on Rle objects
median.Rle	Common operations on Rle objects
mendoapply	Common operations on List objects
mendoapply-method	Common operations on List objects
mendoapply-method	SimpleList objects
merge-method	DataTable objects
metadata	Annotated class
metadata-method	Annotated class
metadata<-	Annotated class
metadata<--method	Annotated class

-- N --

na.exclude-method	DataTable objects
na.omit-method	DataTable objects
names-method	SimpleList objects
names<--method	SimpleList objects
nchar-method	Common operations on Rle objects
NCOL-method	DataTable objects
ncol-method	DataFrame objects
NROW-method	DataTable objects
NROW-method	Vector objects
nrow-method	DataFrame objects
nrun	Rle objects
nrun-method	Rle objects

-- O --

Ops-method	Common operations on Rle objects
order-method	Rle objects

-- P --

paste-method	Common operations on Rle objects
pmax-method	Common operations on Rle objects
pmax.int-method	Common operations on Rle objects
pmin-method	Common operations on Rle objects
pmin.int-method	Common operations on Rle objects
Position-method	Common operations on List objects

-- Q --

quantile-method	Common operations on Rle objects
quantile.Rle	Common operations on Rle objects
queryHits	Hits objects
queryHits-method	Hits objects
queryLength	Hits objects
queryLength-method	Hits objects

-- R --

rbind-method	DataTable objects
Reduce-method	Common operations on List objects
remapHits	Hits objects
rename	Vector objects
rename-method	Vector objects
rep-method	Rle objects
rep.int-method	Rle objects
replaceROWS-method	Vector objects
rev-method	Rle objects
rev.Rle	Rle objects
revElements	Common operations on List objects
revElements-method	Common operations on List objects
Rle	Rle objects
Rle-class	Rle objects
Rle-method	Rle objects
Rle-runstat	Fixed-width running window summaries
Rle-utils	Common operations on Rle objects
ROWNAMES	DataTable objects
ROWNAMES-method	DataTable objects
ROWNAMES-method	Vector objects
rownames-method	DataFrame objects
rownames<--method	DataFrame objects
runLength	Rle objects
runLength-method	Rle objects
runLength<-	Rle objects
runLength<--method	Rle objects
runmean	Fixed-width running window summaries
runmean-method	Fixed-width running window summaries
runmed-method	Fixed-width running window summaries
runq	Fixed-width running window summaries
runq-method	Fixed-width running window summaries
runsum	Fixed-width running window summaries
runsum-method	Fixed-width running window summaries
runValue	Rle objects
runValue-method	Rle objects
runValue<-	Rle objects
runValue<--method	Rle objects
runwtsum	Fixed-width running window summaries
runwtsum-method	Fixed-width running window summaries

-- S --

safeExplode	Some utility functions to operate on strings
sapply-method	Common operations on List objects
sd-method	Common operations on Rle objects
selfmatch	Compare, order, tabulate vector-like objects
selfmatch-method	Hits objects
selfmatch-method	Compare, order, tabulate vector-like objects
setdiff-method	Rle objects
shiftApply-method	Rle objects
show-method	DataTable objects
show-method	Hits objects
show-method	List objects
show-method	Rle objects
showAsCell	Vector objects
showAsCell-method	Rle objects
showAsCell-method	Vector objects
SimpleList	SimpleList objects
SimpleList-class	SimpleList objects
smoothEnds-method	Fixed-width running window summaries
sort-method	Rle objects
sort-method	Compare, order, tabulate vector-like objects
sort.Rle	Rle objects
sort.Vector	Compare, order, tabulate vector-like objects
start-method	Rle objects
strsplitAsListOfIntegerVectors	Some utility functions to operate on strings
sub-method	Common operations on Rle objects
subjectHits	Hits objects
subjectHits-method	Hits objects
subjectLength	Hits objects
subjectLength-method	Hits objects
subset-method	DataTable objects
substr-method	Common operations on Rle objects
substring-method	Common operations on Rle objects
Summary-method	Common operations on Rle objects
summary-method	Common operations on Rle objects
summary.Rle	Common operations on Rle objects
svn.time	Some utility functions to operate on strings

-- T --

t-method	Hits objects
table-method	Rle objects
table-method	Compare, order, tabulate vector-like objects
tolower-method	Common operations on Rle objects
toupper-method	Common operations on Rle objects

-- U --

union-method	Rle objects
unique-method	DataTable objects
unique-method	Rle objects
unique-method	Compare, order, tabulate vector-like objects
unique.DataTable	DataTable objects
unique.Rle	Rle objects
unique.Vector	Compare, order, tabulate vector-like objects
unlist-method	List objects
unstrsplit	Some utility functions to operate on strings
unstrsplit-method	Some utility functions to operate on strings

-- V --

values	Vector objects
values-method	Vector objects
values<-	Vector objects
values<--method	Vector objects
var-method	Common operations on Rle objects
Vector	Vector objects
Vector-class	Vector objects
Vector-comparison	Compare, order, tabulate vector-like objects

-- W --

which-method	Common operations on Rle objects
which.max-method	Common operations on Rle objects
width-method	Rle objects
within-method	Common operations on List objects

-- X --

xtabs-method

DataTable objects

-- misc --

!-method	Common operations on Rle objects
!=-method	Compare, order, tabulate vector-like objects
$-method	List objects
$<--method	List objects
%in%-method	Rle objects
%in%-method	Compare, order, tabulate vector-like objects
<-method	Compare, order, tabulate vector-like objects
<=-method	Compare, order, tabulate vector-like objects
==-method	Compare, order, tabulate vector-like objects
>-method	Compare, order, tabulate vector-like objects
>=-method	Compare, order, tabulate vector-like objects
[-method	DataFrame objects
[-method	List objects
[-method	Rle objects
[-method	Vector objects
[<--method	DataFrame objects
[<--method	List objects
[<--method	Rle objects
[<--method	Vector objects
[[-method	List objects
[[<--method	DataFrame objects
[[<--method	List objects