Description

A program to take a counts file and creates a file of genomic co-ordinates to be masked.

Input

Name (Type)
Description
Pattern

meta (map)

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

counts (file)

Contains count data of repetitive regions.

meta (map)

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

]

ref (file)

An input nucleotide fasta file.

Output

Name (Type)
Description
Pattern

meta (map)

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

]

wm_intervals (file)

An output file containing genomic locations of low
complexity and highly repetitive regions

${output}

versions (file)

File containing software versions

versions.yml
author
Github user DLBPointon
get in touch
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Tools

windowmasker
MIT

A program to mask highly repetitive and low complexity DNA sequences within a genome.

github.com/ncbi/ncbi-cxx-toolkit-public ncbi.github.io/cxx-toolkit