jg.plotMA: jg.plotMA
In andrewholding/Brundle: Normalisation Tools for Inter-Condition Variability of ChIP-Seq Data
Description
This function plots both the control and experimental data on an MA plot.
It also allows for the user to provide a normalisation coefficient for the data.
Usage
1
2
jg.plotMA(jg.experimentPeakset, jg.controlPeakset, jg.untreatedNames,
jg.treatedNames, jg.coefficient)
Arguments
jg.experimentPeakset
is the peakset of the experimental data extracted from a DiffBind ojbect with jg.dbaGetPeakset
jg.controlPeakset
is the peakset of the control data extracted from a DiffBind ojbect with jg.dbaGetPeakset
jg.untreatedNames
is a list of sample names for the control or untreated conditions
jg.treatedNames
is a list of sample samples for the treated conditions
jg.coefficient
is a normalisation coefficient for the data that can be generated via the pipeline. Can be set to 1 to view before normalisation.
andrewholding/Brundle documentation built on May 10, 2019, 5:17 a.m.
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Description
This function plots both the control and experimental data on an MA plot. It also allows for the user to provide a normalisation coefficient for the data.
Usage
1 2 | jg.plotMA(jg.experimentPeakset, jg.controlPeakset, jg.untreatedNames,
jg.treatedNames, jg.coefficient)
|
Arguments
jg.experimentPeakset |
is the peakset of the experimental data extracted from a DiffBind ojbect with jg.dbaGetPeakset |
jg.controlPeakset |
is the peakset of the control data extracted from a DiffBind ojbect with jg.dbaGetPeakset |
jg.untreatedNames |
is a list of sample names for the control or untreated conditions |
jg.treatedNames |
is a list of sample samples for the treated conditions |
jg.coefficient |
is a normalisation coefficient for the data that can be generated via the pipeline. Can be set to 1 to view before normalisation. |
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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