NormalizeExpression: Normalizes gene expression in the PISCESgexp assay. Stores...
In califano-lab/PISCES: Protein Activity Inferecne in Single Cells
NormalizeExpression R Documentation
Normalizes gene expression in the PISCESgexp assay. Stores normalized counts in 'data' field.
Additionally, generates a scaled matrix (interpretable as an internal GES) to the 'scale.data' field.
Description
Normalizes gene expression in the PISCESgexp assay. Stores normalized counts in 'data' field.
Additionally, generates a scaled matrix (interpretable as an internal GES) to the 'scale.data' field.
Usage
NormalizeExpression(pisces.obj, method = c("cpm", "pflogpf"), filt.per = 0.01)
Arguments
pisces.obj
A Seurat object with the PISCESgexp assay.
method
One of 'cpm' or 'pflogpf'
filt.per
Threshold value for gene filtration; genes w/ less than filt.per * num.samps total counts will be removed. Default of 0.01.
Value
A Seurat object with normalized expression in the 'data' field of the PISCESgexp assay.
califano-lab/PISCES documentation built on Jan. 11, 2023, 5:34 a.m.
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| NormalizeExpression | R Documentation |
Normalizes gene expression in the PISCESgexp assay. Stores normalized counts in 'data' field. Additionally, generates a scaled matrix (interpretable as an internal GES) to the 'scale.data' field.
Description
Normalizes gene expression in the PISCESgexp assay. Stores normalized counts in 'data' field. Additionally, generates a scaled matrix (interpretable as an internal GES) to the 'scale.data' field.
Usage
NormalizeExpression(pisces.obj, method = c("cpm", "pflogpf"), filt.per = 0.01)
Arguments
pisces.obj |
A Seurat object with the PISCESgexp assay. |
method |
One of 'cpm' or 'pflogpf' |
filt.per |
Threshold value for gene filtration; genes w/ less than filt.per * num.samps total counts will be removed. Default of 0.01. |
Value
A Seurat object with normalized expression in the 'data' field of the PISCESgexp assay.
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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