filter_n_genes_expr: Get filter for number of genes expressed per barcode based on...
In keshav-motwani/scanalysis: Multi-Sample Visualization and Immune Repertoire Analysis Utilities for Single-Cell Data
Description
Usage
Arguments
Value
Examples
View source: R/filter_gex_outliers.R
Description
Wrapper around scater::isOutlier, arguments type and nmads refer to the same thing. For number of genes expressed, uses log transformed values for deciding cutoffs.
Usage
1
filter_n_genes_expr(sce, nmads, type, column = "n_genes_expr")
Arguments
sce
SingleCellExperiment object
nmads
Number of median absolute deviations from the median for cutoff
type
Either "both", "lower", or "higher", referring to which side to filter on
column
column in colData containing number of genes expressed
Value
Boolean filter with TRUE for cells and FALSE for outliers. Contains attribute with number of median absolute deviations specified.
Examples
1
keshav-motwani/scanalysis documentation built on Feb. 4, 2021, 2:21 a.m.
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Description Usage Arguments Value Examples
View source: R/filter_gex_outliers.R
Description
Wrapper around scater::isOutlier, arguments type and nmads refer to the same thing. For number of genes expressed, uses log transformed values for deciding cutoffs.
Usage
1 | filter_n_genes_expr(sce, nmads, type, column = "n_genes_expr")
|
Arguments
sce |
SingleCellExperiment object |
nmads |
Number of median absolute deviations from the median for cutoff |
type |
Either "both", "lower", or "higher", referring to which side to filter on |
column |
column in colData containing number of genes expressed |
Value
Boolean filter with TRUE for cells and FALSE for outliers. Contains attribute with number of median absolute deviations specified.
Examples
1 |
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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