plot_codon_usage_positional_rmd: Plot positional codon usage heatmaps within the RMarkdown...
In ohlerlab/RiboseQC: RiboseQC, a Comprehensive Ribo-Seq Analysis Tool
plot_codon_usage_positional_rmd R Documentation
Plot positional codon usage heatmaps within the RMarkdown document
Description
This function generates iteratively all positional codon usage heatmaps;
iteration over originating compartments, read length, data type (codon count, read count, codon-read count ratio),
and scaling method (none, log2, zscale).
These plots are displayed in the Ribo-seQC report in section 7.
Usage
plot_codon_usage_positional_rmd(data, sample = "",
output_rds_path = "")
Arguments
data
Object (list of lists) generated by RiboseQC_analysis: res_all.
sample
String; sample name (selected from the input names
given in the input_sample_names parameter of create_html_report).
output_rds_path
String; full path to output folder for RDS object files created by this function.
Defaults to NOT save RDS; to save RDS, provide path to destination folder.
Value
This function returns iteratively all positional codon usage plots
for the html report and saves the same plots as RDS object file.
Author(s)
Dominique Sydow, dominique.sydow@posteo.de
See Also
create_html_report
ohlerlab/RiboseQC documentation built on Aug. 15, 2023, 7:30 a.m.
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| plot_codon_usage_positional_rmd | R Documentation |
Plot positional codon usage heatmaps within the RMarkdown document
Description
This function generates iteratively all positional codon usage heatmaps;
iteration over originating compartments, read length, data type (codon count, read count, codon-read count ratio),
and scaling method (none, log2, zscale).
These plots are displayed in the Ribo-seQC report in section 7.
Usage
plot_codon_usage_positional_rmd(data, sample = "",
output_rds_path = "")
Arguments
data |
Object (list of lists) generated by |
sample |
String; sample name (selected from the input names
given in the |
output_rds_path |
String; full path to output folder for RDS object files created by this function. Defaults to NOT save RDS; to save RDS, provide path to destination folder. |
Value
This function returns iteratively all positional codon usage plots for the html report and saves the same plots as RDS object file.
Author(s)
Dominique Sydow, dominique.sydow@posteo.de
See Also
create_html_report
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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