Description

A Java based tool to determine damage patterns on ancient DNA as a replacement for mapDamage

Input

name:type
description
pattern

meta

:map

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

bam

:file

BAM/CRAM/SAM file

*.{bam,cram,sam}

fasta

:file

OPTIONAL FASTA reference file

*.{fasta,fna,fa}

fai

:file

OPTIONAL FASTA index file from samtools faidx

*.{fai}

specieslist

:file

OPTIONAL text file with list of target reference headers

*.{txt}

Output

name:type
description
pattern

results

meta

:directory

DamageProfiler results directory

*/*

${prefix}

:directory

DamageProfiler results directory

*/*

versions

versions.yml

:file

File containing software versions

versions.yml

Tools

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