Description

DeDup is a tool for read deduplication in paired-end read merging (e.g. for ancient DNA experiments).

Input

Name (Type)
Description
Pattern

meta (map)

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

]

bam (file)

BAM/SAM file

*.{bam,sam}

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

bam (file)

Deduplicated BAM file

*_rmdup.bam

json (file)

JSON file for MultiQC

*.json

hist (file)

Histogram data of amount of deduplication

*.hist

log (file)

Dedup log information

*log
maintainer
Github user jfy133
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

dedup
GPL v3

DeDup is a tool for read deduplication in paired-end read merging (e.g. for ancient DNA experiments).

github.com/apeltzer/DeDup dedup.readthedocs.io/en/latest https://github.com/apeltzer/DeDup 10.1186/s13059-016-0918-z