modules/megan_rma2info

Analyses an RMA file and exports information in text format

meganrma6classificationconversion

https://github.com/nf-core/modules/[...]/modules/nf-core/megan/rma2info

Description

Analyses an RMA file and exports information in text format

Input

name:type

description

pattern

`meta`
`:map`

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

`rma6`
`:file`

RMA6 file from MEGAN or MALT

*.rma6

`megan_summary`
`:boolean`

Specify whether to generate an MEGAN summary file

Output

name:type

description

pattern

`txt`

`meta`
`:map`

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

`*.txt.gz`
`:file`

Compressed text file

*.txt.gz

`megan_summary`

`meta`
`:map`

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

`*.megan`
`:file`

Optionally generated MEGAN summary file

*.megan

`versions_megan`

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

The name of the process

`megan`
`:string`

The name of the tool

`rma2info 2>&1 | sed -n 's/.version $[^,]$.*/\1/p'`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

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

The name of the process

`megan`
`:string`

The name of the tool

`rma2info 2>&1 | sed -n 's/.version $[^,]$.*/\1/p'`
`:eval`

The expression to obtain the version of the tool

Tools

megan
GPL >=3

A tool for studying the taxonomic content of a set of DNA reads

uni-tuebingen.de/fakultaeten/mathematisch-naturwissenschaftliche-fakultaet/fachbereiche/informatik/lehrstuehle/algorithms-in-bioinformatics/software/megan6 software-ab.cs.uni-tuebingen.de/download/megan6/welcome https://github.com/husonlab/megan-ce 10.1371/journal.pcbi.1004957

modules/megan_rma2info

Description

Input

`meta`
`:map`

`rma6`
`:file`

`megan_summary`
`:boolean`

Output

`txt`

`meta`
`:map`

`*.txt.gz`
`:file`

`megan_summary`

`meta`
`:map`

`*.megan`
`:file`

`versions_megan`

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

`megan`
`:string`

`rma2info 2>&1 | sed -n 's/.version \([^,]\).*/\1/p'`
`:eval`

Topics

`versions`

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

`megan`
`:string`

`rma2info 2>&1 | sed -n 's/.version \([^,]\).*/\1/p'`
`:eval`

Tools

megan
GPL >=3

included in

maintainer

get in touch

modules/megan_rma2info

Description

Input

meta :map

rma6 :file

megan_summary :boolean

Output

txt

meta :map

*.txt.gz :file

megan_summary

meta :map

*.megan :file

versions_megan

${task.process} :string

megan :string

rma2info 2>&1 | sed -n 's/.*version \([^,]*\).*/\1/p' :eval

Topics

versions

${task.process} :string

megan :string

rma2info 2>&1 | sed -n 's/.*version \([^,]*\).*/\1/p' :eval

Tools

meganGPL >=3

included in

maintainer

get in touch

`meta`
`:map`

`rma6`
`:file`

`megan_summary`
`:boolean`

`txt`

`meta`
`:map`

`*.txt.gz`
`:file`

`megan_summary`

`meta`
`:map`

`*.megan`
`:file`

`versions_megan`

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

`megan`
`:string`

`rma2info 2>&1 | sed -n 's/.version \([^,]\).*/\1/p'`
`:eval`

`versions`

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

`megan`
`:string`

`rma2info 2>&1 | sed -n 's/.version \([^,]\).*/\1/p'`
`:eval`

megan
GPL >=3