Description Usage Arguments Value Author(s)
By calculating the difference of dispersion between case and control, MASCOT identifys highly dispersion differentially expressed genes for subsequent analysis.
1 | Get_high_var_genes(expression_profile, sample_info_gene, x.low.cutoff = 0.0125, x.high.cutoff = 5, y.cutoff = 1, do.spike = FALSE, num.bin = 30, plot = FALSE, plot_path = "~/get_high_var_genes.pdf")
|
expression_profile |
A dataframe showing the expression profile after all the filterings. |
sample_info_gene |
A character vector showing the knockout gene of each sample after all the filterings. |
x.low.cutoff |
Bottom cutoff on x-axis for identifying variable genes |
x.high.cutoff |
Top cutoff on x-axis for identifying variable genes |
y.cutoff |
Bottom cutoff on y-axis for identifying variable genes |
do.spike |
FALSE by default. If TRUE, all genes starting with ^ERCC will be used to normalize the whole data. For most singe cell CRISPR screening data, generally, there are no spike-in genes. |
num.bin |
Total number of bins to use in the scaled analysis (default is 30) |
plot |
FALSE by default. If TURE, plot the graphs. |
plot_path |
The path of graph you plot. It works only when "plot" is TURE. |
A dataframe showing the expression profile only for the selected highly dispersion differentially expressed genes.
Bin Duan
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