find_group_marker_genes: Find group-specific genes.
In altairwei/rhapsodykit: A Set of Tools for BD Rhapsody WTA Downstream Analysis
View source: R/differential_state.R
find_group_marker_genes R Documentation
Find group-specific genes.
Description
Find group-specific genes.
Usage
find_group_marker_genes(
sce,
pb,
target_group,
method = c("edgeR", "DESeq2", "limma-trend", "limma-voom")
)
Arguments
sce
A SingleCellExperiment object. The following
cell metadata (colData) columns have to be provided:
sample_idunique sample identifiers
cluster_idsubpopulation (cluster) assignments
group_idexperimental group/condition
pb
Object return by calculate_pseudo_bulk
target_group
Which group to find marker genes.
method
Specify which bulk RNA-seq DE methods to apply.
altairwei/rhapsodykit documentation built on Feb. 1, 2023, 8:52 a.m.
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View source: R/differential_state.R
| find_group_marker_genes | R Documentation |
Find group-specific genes.
Description
Find group-specific genes.
Usage
find_group_marker_genes(
sce,
pb,
target_group,
method = c("edgeR", "DESeq2", "limma-trend", "limma-voom")
)
Arguments
sce |
A SingleCellExperiment object. The following
cell metadata (
|
pb |
Object return by |
target_group |
Which group to find marker genes. |
method |
Specify which bulk RNA-seq DE methods to apply. |
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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