Description

Annotate a pretextmap snapshot with chromosome names, numbers and genomelength

Input

Name
Description
Pattern

meta (map)

Groovy Map containing sample information e.g. [ id:'sample1' ]

sizes (file)

TSV containing chromosome names and lengths

*.{genome,sizes}

meta2 (map)

Groovy Map containing sample information e.g. [ id:'sample1' ]

snapshot (file)

A png snapshot of a pretext map

*.png

Output

Name
Description
Pattern

gif

meta (map)

Groovy Map containing sample information e.g. [ id:'sample1' ]

*.gif (file)

An annotated gif containing a pretextmap and labels

png

meta (map)

Groovy Map containing sample information e.g. [ id:'sample1' ]

*.png (file)

An annotated png containing a pretextmap and labels

tif

meta (map)

Groovy Map containing sample information e.g. [ id:'sample1' ]

*.tif (file)

An annotated tif containing a pretextmap and labels

versions_pretextannotate

${task.process} (string)

The name of the process

pretextannotate (string)

The name of the module

pretextannotate -v | sed 's/pretextannotate. //g' (eval)

The expression to obtain the version of the tool

Topics

Name
Description
Pattern

versions

${task.process} (string)

The name of the process

pretextannotate (string)

The name of the module

pretextannotate -v | sed 's/pretextannotate. //g' (eval)

The expression to obtain the version of the tool

Tools

pretextannotate Documentation

pretextannotate

License: MIT
Authors