batchCorrection: Batch-correction for CyTOF data
In casanova-lab/iMUBAC: Integration of Multi-Batch Cytometry datasets
View source: R/batchCorrection.R
batchCorrection R Documentation
Batch-correction for CyTOF data
Description
batchCorrection takes an SCE object returned by prepSCE and
performs batch correction using Harmony.
Down-sampling is done prior to batch correction for improving speed.
Usage
batchCorrection(sce, maxN = 1e+05, seed = 12345)
Arguments
sce
A SingleCellExperiment object.
colData(sce) must contain file_name and batch columns.
maxN
Numeric.
Specifies the maximum number of unique cells per batch. For example,
if one batch contains five samples, the function randomly takes maxN/5
cells from each of the samples.
seed
Numeric. Sets a random seed.
Value
A SingleCellExperiment-class object.
casanova-lab/iMUBAC documentation built on Sept. 13, 2022, 6:36 p.m.
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View source: R/batchCorrection.R
| batchCorrection | R Documentation |
Batch-correction for CyTOF data
Description
batchCorrection takes an SCE object returned by prepSCE and
performs batch correction using Harmony.
Down-sampling is done prior to batch correction for improving speed.
Usage
batchCorrection(sce, maxN = 1e+05, seed = 12345)
Arguments
sce |
A |
maxN |
Numeric.
Specifies the maximum number of unique cells per batch. For example,
if one batch contains five samples, the function randomly takes |
seed |
Numeric. Sets a random seed. |
Value
A SingleCellExperiment-class object.
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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