exportKrona: Export the taxonomy of a SQM object into a Krona Chart

In SQMtools: Analyze Results Generated by the 'SqueezeMeta' Pipeline

Export the taxonomy of a SQM object into a Krona Chart

Description

Generate a krona chart containing the full taxonomy from a SQM object.

Usage

exportKrona(SQM, output_name = NA)

Arguments

SQM	A SQM, SQMbunch or SQMlite object.
output_name	character. Name of the output file containing the Krona charts in html format (default "<project_name>.krona.html").

Details

Original code was kindly provided by Giuseppe D'Auria ([e-mail]).

Value

No return value, but a krona chart is produced in the current working directory.

See Also

plotTaxonomy for plotting the most abundant taxa of a SQM object.

Examples

data(Hadza)
# Check that kronatools is present.
ecode = system('ktImportText', ignore.stdout = TRUE, ignore.stderr = TRUE)
# If so, run.
if(ecode==0) { exportKrona(Hadza, output_name = file.path(tempdir(), "krona.html")) }

SQMtools documentation built on April 3, 2025, 6:16 p.m.