chipSmooth {ChIPanalyser} | R Documentation |
chipSmooth
slot in a
occupancyProfileParameters
object.
Access or Extract chipSmooth
slot in a
occupancyProfileParameters
object.
chipSmooth(object)
object |
|
When computing ChIP-seq like (computeChipProfile
) profile
from occupancy data (see computeOccupancy
),
the profiles are smoothed using a window of a given size.
The default value is set at 250 base pairs. If chipSmooth
is set to 0 then the profile will not be smoothed.
We strongly encourage to set values when building a
occupancyProfileParameters
object.
Returns the chipSmooth
slot in an
occupancyProfileParameters
object.
Patrick C.N. Martin <pm16057@essex.ac.uk>
Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84–94.
# Building occupancyProfileParameters object OPP <- occupancyProfileParameters() # Accessing chipSd slot chipSmooth(OPP)