getMeanNormalizedCountsSE: Make mean treatment summarized experiment:
In michaeldshapiro/deltaCaptureC: This Package Discovers Meso-scale Chromatin Remodeling from 3C Data
View source: R/deltaCaptureC.R
getMeanNormalizedCountsSE R Documentation
Make mean treatment summarized experiment:
Description
Get the mean normalized counts for each treatment
Usage
getMeanNormalizedCountsSE(countsSE, byTreatment = "treatment")
Arguments
countsSE
A SummarizedExperiment containing an assay 'counts' and
optionally an assay 'normalizedCounts'
byTreatment
= 'treatment' This gives the column of colData to use for
taking averages
Details
This function takes a SummarizedExperiment. It looks for an assay called
normalizedCounts. If this assay is missing, it creates it by normalizing
using the size factors. By default, it takes the mean for each value of
colData$treatment
Value
A SummarizedExperiment giving mean normalized counts for each value of
byTreatment
Examples
meanNormalizedCountSE = getMeanNormalizedCountsSE(miniSE)
michaeldshapiro/deltaCaptureC documentation built on April 21, 2023, 8:18 a.m.
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View source: R/deltaCaptureC.R
| getMeanNormalizedCountsSE | R Documentation |
Make mean treatment summarized experiment:
Description
Get the mean normalized counts for each treatment
Usage
getMeanNormalizedCountsSE(countsSE, byTreatment = "treatment")
Arguments
countsSE |
A SummarizedExperiment containing an assay 'counts' and optionally an assay 'normalizedCounts' |
byTreatment |
= 'treatment' This gives the column of colData to use for taking averages |
Details
This function takes a SummarizedExperiment. It looks for an assay called normalizedCounts. If this assay is missing, it creates it by normalizing using the size factors. By default, it takes the mean for each value of colData$treatment
Value
A SummarizedExperiment giving mean normalized counts for each value of byTreatment
Examples
meanNormalizedCountSE = getMeanNormalizedCountsSE(miniSE)
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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