modules/merquryfk_katcomp

A reimplemenation of Kat Comp to work with FastK databases

fastkk-mercompare

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

Description

A reimplemenation of Kat Comp to work with FastK databases

Input

name:type

description

pattern

`meta`
`:map`

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

`fastk1_hist`
`:file`

A histogram files from the program FastK

*.hist

`fastk1_ktab`
`:file`

Histogram ktab files from the program FastK (option -t)

*.ktab*

`fastk2_hist`
`:file`

A histogram files from the program FastK

*.hist

`fastk2_ktab`
`:file`

Histogram ktab files from the program FastK (option -t)

*.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`

Comparison of Kmers between sample 1 and 2 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_katcomp

Description

Input

`meta`
`:map`

`fastk1_hist`
`:file`

`fastk1_ktab`
`:file`

`fastk2_hist`
`:file`

`fastk2_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_katcomp

Description

Input

meta :map

fastk1_hist :file

fastk1_ktab :file

fastk2_hist :file

fastk2_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`

`fastk1_hist`
`:file`

`fastk1_ktab`
`:file`

`fastk2_hist`
`:file`

`fastk2_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`