dispersed_genes: Print highly-dispersed genes.
In juliendelile/Antler: ANother Transcriptome Lineage ExploreR
Description
The genes are allocated to a bin based on their average log-level of expression, then with each bin the dispersion (variance over mean of the log-levels) is z-scored. Genes having a sufficiently high dispersion z-scores are returned.
This method replicates FindVariableFeatures from the Seurat package.
Arguments
zscore_threshold
a numeric value indicating the zcored dispersion threshold above which the gene names are returned. Default to 0.
num_bins
a integer value indicating the number of bins used to calculate z-score into. Default to 20.
data_status
character string. Specifies whether the gene expression levels used for calculation are raw ("Raw"), normalized ("Normalized") or have been imputed ("Smoothed"). Default to "Raw".
invert
logical. If FALSE (default) genes with z-scored dispersion higher than the threshold are returned. If FALSE, the complementary set is returned.
Value
a character vector of genes showing a sufficient level of dispersion.
juliendelile/Antler documentation built on June 19, 2021, 9 a.m.
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Description
The genes are allocated to a bin based on their average log-level of expression, then with each bin the dispersion (variance over mean of the log-levels) is z-scored. Genes having a sufficiently high dispersion z-scores are returned.
This method replicates FindVariableFeatures from the Seurat package.
Arguments
zscore_threshold |
a numeric value indicating the zcored dispersion threshold above which the gene names are returned. Default to 0. |
num_bins |
a integer value indicating the number of bins used to calculate z-score into. Default to 20. |
data_status |
character string. Specifies whether the gene expression levels used for calculation are raw ("Raw"), normalized ("Normalized") or have been imputed ("Smoothed"). Default to "Raw". |
invert |
logical. If FALSE (default) genes with z-scored dispersion higher than the threshold are returned. If FALSE, the complementary set is returned. |
Value
a character vector of genes showing a sufficient level of dispersion.
R Package Documentation
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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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