| 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)