binding_sites {cobindR} | R Documentation |
motif hits on the foreground sequences
## S4 method for signature 'cobindr' binding_sites(x) ## S4 replacement method for signature 'cobindr,data.frame' binding_sites(x) <- value
x |
a cobindr object |
value |
data.frame holding the binding site hits in the foreground sequences |
motif hits in foreground sequences as data.frame
Rob Lehmann <r.lehmann@biologie.hu-berlin.de>
uid
,name
,sequences
,bg_sequences
,desc
,configuration
,binding_sites
,bg_binding_sites
,pfm
,pairs
,bg_pairs
,pairs_of_interest
cfg <- cobindRConfiguration() sequence_type(cfg) <- 'fasta' sequence_source(cfg) <- system.file('extdata/sox_oct_example_vignette_seqs.fasta',package='cobindR') sequence_origin(cfg) <- 'Mouse Embryonic Stem Cell Example ChIP-Seq Oct4 Peak binding_sites' cbr <- cobindr(cfg) binding_sites(cbr)