modules/merquryfk_katgc

A reimplemenation of KatGC to work with FastK databases

k-mer frequencyGC content3D heat mapcontour map

https://github.com/nf-core/modules/[...]/modules/nf-core/merquryfk/katgc

Description

A reimplemenation of KatGC to work with FastK databases

Input

name:type

description

pattern

`meta`
`:map`

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

`fastk_hist`
`:file`

A histogram files from the program FastK

*.hist

`fastk_ktab`
`:file`

ktab files from the program FastK

*.ktab*

Output

name:type

description

pattern

`images`

`meta`
`:map`

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

*.fi.{png,pdf}

`*.{png,pdf}`
`:file`

GC content plots in PNG or PDF format

*.{png,pdf}

`versions_merquryfk`

`${task.process}`
`:string`

The name of the process

`merquryfk`
`:string`

The name of the tool

`1.2`
`:string`

The expression to obtain the version of the tool

`versions_fastk`

`${task.process}`
`:string`

The name of the process

`fastk`
`:string`

The name of the tool

`1.2`
`:string`

The expression to obtain the version of the tool

`versions_r`

`${task.process}`
`:string`

The name of the process

`R`
`:string`

The name of the tool

`R --version | sed "1!d; s/.version //; s/ .//"`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

`${task.process}`
`:string`

The name of the process

`merquryfk`
`:string`

The name of the tool

`1.2`
`:string`

The expression to obtain the version of the tool

`${task.process}`
`:string`

The name of the process

`fastk`
`:string`

The name of the tool

`1.2`
`:string`

The expression to obtain the version of the tool

`${task.process}`
`:string`

The name of the process

`R`
`:string`

The name of the tool

`R --version | sed "1!d; s/.version //; s/ .//"`
`:eval`

The expression to obtain the version of the tool

Tools

merquryfk

FastK based version of Merqury

github.com/thegenemyers/MERQURY.FK https://github.com/thegenemyers/MERQURY.FK

modules/merquryfk_katgc

Description

Input

`meta`
`:map`

`fastk_hist`
`:file`

`fastk_ktab`
`:file`

Output

`images`

`meta`
`:map`

`*.{png,pdf}`
`:file`

`versions_merquryfk`

`${task.process}`
`:string`

`merquryfk`
`:string`

`1.2`
`:string`

`versions_fastk`

`${task.process}`
`:string`

`fastk`
`:string`

`1.2`
`:string`

`versions_r`

`${task.process}`
`:string`

`R`
`:string`

`R --version | sed "1!d; s/.version //; s/ .//"`
`:eval`

Topics

`versions`

`${task.process}`
`:string`

`merquryfk`
`:string`

`1.2`
`:string`

`${task.process}`
`:string`

`fastk`
`:string`

`1.2`
`:string`

`${task.process}`
`:string`

`R`
`:string`

`R --version | sed "1!d; s/.version //; s/ .//"`
`:eval`

Tools

merquryfk

maintainer

get in touch

modules/merquryfk_katgc

Description

Input

meta:map

fastk_hist:file

fastk_ktab:file

Output

images

meta:map

*.{png,pdf}:file

versions_merquryfk

${task.process}:string

merquryfk:string

1.2:string

versions_fastk

${task.process}:string

fastk:string

1.2:string

versions_r

${task.process}:string

R:string

R --version | sed "1!d; s/.*version //; s/ .*//":eval

Topics

versions

${task.process}:string

merquryfk:string

1.2:string

${task.process}:string

fastk:string

1.2:string

${task.process}:string

R:string

R --version | sed "1!d; s/.*version //; s/ .*//":eval

Tools

merquryfk

maintainer

get in touch

`meta`
`:map`

`fastk_hist`
`:file`

`fastk_ktab`
`:file`

`images`

`meta`
`:map`

`*.{png,pdf}`
`:file`

`versions_merquryfk`

`${task.process}`
`:string`

`merquryfk`
`:string`

`1.2`
`:string`

`versions_fastk`

`${task.process}`
`:string`

`fastk`
`:string`

`1.2`
`:string`

`versions_r`

`${task.process}`
`:string`

`R`
`:string`

`R --version | sed "1!d; s/.version //; s/ .//"`
`:eval`

`versions`

`${task.process}`
`:string`

`merquryfk`
`:string`

`1.2`
`:string`

`${task.process}`
`:string`

`fastk`
`:string`

`1.2`
`:string`

`${task.process}`
`:string`

`R`
`:string`

`R --version | sed "1!d; s/.version //; s/ .//"`
`:eval`