| newCher {Ringo} | R Documentation |
This is just a simple convenience function to create a list
of class cher (ChIP-enriched region).
newCher(name, chr, start, end, cellType = NULL, antibody, maxLevel, score = NULL, probes = c(), ...)
name |
character; (if possible) unique identifier for the cher |
chr |
character; chromosome the cher is located on |
start |
integer; genomic start coordinate of the Cher |
end |
integer; genomic end coordinate of the Cher |
cellType |
optional character describing the cell type in which the cher was identified. |
antibody |
required character vector describing the antibody or other characteristic for which fragments were supposedly enriched in immuno-precipitation step |
maxLevel |
numeric; maximal probe level in the cher |
score |
optional numeric score of the cher |
probes |
optional character vector of probe identifiers of probes that make up the cher |
... |
further arguments that will be additional elements of the
cher list object |
a list object of class cher, see cher-class
this function is called by other Ringo functions, such as
findChersOnSmoothed and normally need not be called by
the user.
Tammo Krueger, Joern Toedling
cher-class, findChersOnSmoothed
cher1 <- newCher("Suz12.Nudt2.upstream.cher",
chr="9", start=34318900, end=34320100,
antibody="Suz12",cellType="human",
maxLevel=2, score=99)
print(cher1)