Description

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

Input

name:type
description
pattern

meta{:bash}

:map

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

histogram{:bash}

:file

A K-mer histogram file

*.hist

Output

name:type
description
pattern

linear_plot_png{:bash}

meta{:bash}

:map

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

${prefix}_linear_plot.png{:bash}

:file

A genomescope2 linear plot in PNG format

*_linear_plot.png

transformed_linear_plot_png{:bash}

meta{:bash}

:map

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

${prefix}_transformed_linear_plot.png{:bash}

:file

A genomescope2 transformed linear plot in PNG format

*_transformed_linear_plot.png

log_plot_png{:bash}

meta{:bash}

:map

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

${prefix}_log_plot.png{:bash}

:file

A genomescope2 log plot in PNG format

*_log_plot.png

transformed_log_plot_png{:bash}

meta{:bash}

:map

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

${prefix}_transformed_log_plot.png{:bash}

:file

A genomescope2 transformed log plot in PNG format

*_transformed_log_plot.png

model{:bash}

meta{:bash}

:map

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

${prefix}_model.txt{:bash}

:file

Genomescope2 model fit summary

*_model.txt

summary{:bash}

meta{:bash}

:map

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

${prefix}_summary.txt{:bash}

:file

Genomescope2 histogram summary

*_summary.txt

lookup_table{:bash}

meta{:bash}

:map

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

${prefix}_lookup_table.txt{:bash}

:file

Fitted histogram lookup table

*_lookup_table.txt

fitted_histogram_png{:bash}

meta{:bash}

:map

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

${prefix}_fitted_hist.png{:bash}

:file

A genomescope2 fitted histogram plot in PNG format

*_fitted_hist.png

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

maintainer
Github user mahesh-panchal
get in touch
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