sce_get_cc_genes: Identify cell cycle-related genes by using variance explained...
In bioinfocz/scdrake: A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like toolkit for R language
sce_get_cc_genes R Documentation
Identify cell cycle-related genes by using variance explained threshold.
Description
For more details see the HVG selection section in 02_norm_clustering.yaml config.
Usage
sce_get_cc_genes(sce, var_expl_threshold, variable = "phase", ...)
Arguments
sce
A SingleCellExperiment object.
var_expl_threshold
A numeric scalar: threshold for variance explained.
Features exceeding this threshold will be marked as CC-related.
variable
A character scalar: column to use for calculation of variance explained.
...
Passed to scater::getVarianceExplained().
Value
A character vector of gene IDs marked as CC-related.
bioinfocz/scdrake documentation built on Sept. 19, 2024, 4:43 p.m.
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| sce_get_cc_genes | R Documentation |
Identify cell cycle-related genes by using variance explained threshold.
Description
For more details see the HVG selection section in 02_norm_clustering.yaml config.
Usage
sce_get_cc_genes(sce, var_expl_threshold, variable = "phase", ...)
Arguments
sce |
A |
var_expl_threshold |
A numeric scalar: threshold for variance explained. Features exceeding this threshold will be marked as CC-related. |
variable |
A character scalar: column to use for calculation of variance explained. |
... |
Passed to |
Value
A character vector of gene IDs marked as CC-related.
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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