cellType: Cell type guess This function is a R adaptation from Alona...
In ramonvidal/punyplatypus: What the Package Does (One Line, Title Case)
Description
Usage
Arguments
Value
Examples
View source: R/cell_annotation.R
Description
Cell type guess
This function is a R adaptation from Alona similar python function. It uses PanglaoDB database
Usage
1
cellType(markers, species = "mouse", pvalue = 0.05)
Arguments
markers
Dataframe with seurat marker predictions.
species
use mouse or human (default: "mouse")
pvalue
maximum pvalue for significancy on fisher test (default: 0.05)
Value
A list containing celltype predictions with adjusted p-values (fdr) and many other measures of performance. Output table is sorted by cluster and PPV (precision) as this one was the best classifier in some benchmarking datasets.
Examples
1
celltypes(markers, species = "mouse", pvalue = 0.01)
ramonvidal/punyplatypus documentation built on May 27, 2020, 7:34 p.m.
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Description Usage Arguments Value Examples
View source: R/cell_annotation.R
Description
Cell type guess This function is a R adaptation from Alona similar python function. It uses PanglaoDB database
Usage
1 | cellType(markers, species = "mouse", pvalue = 0.05)
|
Arguments
markers |
Dataframe with seurat marker predictions. |
species |
use mouse or human (default: "mouse") |
pvalue |
maximum pvalue for significancy on fisher test (default: 0.05) |
Value
A list containing celltype predictions with adjusted p-values (fdr) and many other measures of performance. Output table is sorted by cluster and PPV (precision) as this one was the best classifier in some benchmarking datasets.
Examples
1 | celltypes(markers, species = "mouse", pvalue = 0.01)
|
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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