chipSmooth: Accessor methods for 'chipSmooth' slot in a...
In ChIPanalyser: ChIPanalyser: Predicting Transcription Factor Binding Sites
Description
Usage
Arguments
Details
Value
Author(s)
References
Examples
Description
Access or Extract chipSmooth slot in a
parameterOptions object.
Usage
1
chipSmooth(object)
Arguments
object
object is a parameterOptions object.
Details
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
parameterOptions object.
Value
Returns the chipSmooth slot in an
parameterOptions object.
Author(s)
Patrick C.N. Martin <pm16057@essex.ac.uk>
References
Zabet NR, Adryan B (2015) Estimating binding properties of transcription
factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84<e2><80><93>94.
Examples
1
2
3
4
# Building parameterOptions object
OPP <- parameterOptions()
# Accessing chipSd slot
chipSmooth(OPP)
ChIPanalyser documentation built on Nov. 8, 2020, 8:23 p.m.
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Description Usage Arguments Details Value Author(s) References Examples
Description
Access or Extract chipSmooth slot in a
parameterOptions object.
Usage
1 | chipSmooth(object)
|
Arguments
object |
|
Details
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
parameterOptions object.
Value
Returns the chipSmooth slot in an
parameterOptions object.
Author(s)
Patrick C.N. Martin <pm16057@essex.ac.uk>
References
Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84<e2><80><93>94.
Examples
1 2 3 4 | # Building parameterOptions object
OPP <- parameterOptions()
# Accessing chipSd slot
chipSmooth(OPP)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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