NormalizeData | R Documentation |
Normalize the count data present in a given assay.
NormalizeData(object, ...)
## S3 method for class 'V3Matrix'
NormalizeData(
object,
normalization.method = "LogNormalize",
scale.factor = 10000,
margin = 1,
block.size = NULL,
verbose = TRUE,
...
)
## S3 method for class 'Assay'
NormalizeData(
object,
normalization.method = "LogNormalize",
scale.factor = 10000,
margin = 1,
verbose = TRUE,
...
)
## S3 method for class 'Seurat'
NormalizeData(
object,
assay = NULL,
normalization.method = "LogNormalize",
scale.factor = 10000,
margin = 1,
verbose = TRUE,
...
)
object |
An object |
... |
Arguments passed to other methods |
normalization.method |
Method for normalization.
|
scale.factor |
Sets the scale factor for cell-level normalization |
margin |
If performing CLR normalization, normalize across features (1) or cells (2) |
block.size |
How many cells should be run in each chunk, will try to split evenly across threads |
verbose |
display progress bar for normalization procedure |
assay |
Name of assay to use |
Returns object after normalization
## Not run:
data("pbmc_small")
pbmc_small
pmbc_small <- NormalizeData(object = pbmc_small)
## End(Not run)
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