Description

create mappability files for a genome

Input

Name (Type)
Description
Pattern

meta (map)

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

]

index (directory)

index directory

meta2 (map)

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

]

regions (file)

optional - a bed file with regions to define the mappability off

*.bed

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

wig (file)

genmap wig mappability file

*.wig

bedgraph (file)

genmap bedgraph mappability file

*.bedgraph

txt (file)

genmap text mappability file

*.txt

csv (file)

genmap csv mappability file

*.csv
authors
Github user jianhong Github user nvnieuwk
get in touch
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Tools

genmap
BSD-3-Clause

Ultra-fast computation of genome mappability.

github.com/cpockrandt/genmap 10.1093/bioinformatics/btaa222