segReads-class {PICS} | R Documentation |
Pre-process bidirectional aligned reads data from a single ChIP-Seq
experiment to detect candidate regions with a minimum number of forward and
reverse reads. These candidate regions will then be processed by PICS
.
segReads(yF, yR, cF, cR, map, chr) segReadsList(List, paraSW, N, Nc) ## S4 method for signature 'segReads' show(object) ## S4 method for signature 'segReadsList' show(object) map(x, ...) ## S4 method for signature 'segReads' map(x) ## S4 method for signature 'segReadsList' map(x) ## S4 method for signature 'segReadsList' length(x) ## S4 method for signature 'segReadsList' summary(object) ## S4 method for signature 'segReads' summary(object) ## S4 method for signature 'segReadsList,ANY,ANY,ANY' x[i, j, ..., drop = FALSE] ## S4 method for signature 'segReadsList,ANY,ANY' x[[i, j, ..., exact = TRUE]]
yF |
A |
yR |
A |
cF |
A |
cR |
A |
map |
A |
chr |
A |
List |
A |
paraSW |
A |
N |
A |
Nc |
A |
object, x |
A |
i, j, ..., exact, drop |
Additional arguments passed to subset methods. |
segReads
: segReads
Constructor
segReadsList
: segReadsList
Constructor
show,segReads-method
: show method
show,segReadsList-method
: show method
map
: map generic
map,segReads-method
: map method
map,segReadsList-method
: map method
length,segReadsList-method
: Return length of segReadsList
summary,segReadsList-method
: Summary method
summary,segReads-method
: Summary method
[,segReadsList,ANY,ANY,ANY-method
: Subset methods
[[,segReadsList,ANY,ANY-method
: Subset methods
segReads and segReadsList objects are not meant to be built via the
constructors. The constructors are used in segmentPICS
.