Description

Estimate genome heterozygosity, repeat content, and size from sequencing reads using a kmer-based statistical approach

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

histogram (file)

A K-mer histogram file

*.hist

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

linear_plot_png (file)

A genomescope2 linear plot in PNG format

*_linear_plot.png

linear_plot_png (file)

A genomescope2 linear plot in PNG format

*_linear_plot.png

transformed_linear_plot_png (file)

A genomescope2 transformed linear plot in PNG format

*_transformed_linear_plot.png

log_plot_png (file)

A genomescope2 log plot in PNG format

*_log_plot.png

transformed_log_plot_png (file)

A genomescope2 transformed log plot in PNG format

*_transformed_log_plot.png

model (file)

Genomescope2 model fit summary

*_model.txt

summary (file)

Genomescope2 histogram summary

*_summary.txt

lookup_table (file)

Fitted histogram lookup table

*_lookup_table.txt

fitted_histogram_png (file)

A genomescope2 fitted histogram plot in PNG format

*_fitted_hist.png
included in
genomeassembler
maintainer
Github user mahesh-panchal
get in touch
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Tools