Description

A derivative of GenomeScope2.0 modified to work with FastK

Input

name:type
description
pattern

meta:map

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

]

fastk_histex_histogram:file

A histogram formatted for GeneScope using the -G parameter from Fastk Histex

*.hist

Output

name:type
description
pattern

linear_plot

meta:map

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

]

*_linear_plot.png:file

A GeneScope linear plot in PNG format

*_linear_plot.png

log_plot

meta:map

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

]

*_log_plot.png:file

A GeneScope log plot in PNG format

*_log_plot.png

model

meta:map

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

]

*_model.txt:file

GeneScope model fit summary

*_model.txt

summary

meta:map

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

]

*_summary.txt:file

GeneScope histogram summary

*_summary.txt

transformed_linear_plot

meta:map

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

]

*_transformed_linear_plot.png:file

A GeneScope transformed linear plot in PNG format

*_transformed_linear_plot.png

transformed_log_plot

meta:map

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

]

*_transformed_log_plot.png:file

A GeneScope transformed log plot in PNG format

*_transformed_log_plot.png

kmer_cov

meta:map

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

]

KMERCOV:float

Average kmer coverage value extracted from summary file

[0-9.]+

versions

versions.yml:file

File containing software versions

versions.yml

Tools

genescopefk
https://github.com/thegenemyers/GENESCOPE.FK/blob/main/LICENSE

A derivative of GenomeScope2.0 modified to work with FastK