Bayesian reconstruction of ancient DNA fragments
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
reads:file
Unaligned BAM or one or two gzipped FASTQ file(s)
*.{bam,fq.gz,fastq.gz}
bam
${prefix}.bam:file
BAM file
*.bam
fq_pass
${prefix}.fq.gz:file
Trimmed and merged FASTQ
*.fq.gz
fq_fail
${prefix}.fail.fq.gz:file
Failed trimmed and merged FASTQs
*.fail.fq.gz
unmerged_r1_fq_pass
${prefix}_r1.fq.gz:file
Passed unmerged R1 FASTQs
*.r1.fq.gz
unmerged_r1_fq_fail
${prefix}_r1.fail.fq.gz:file
Failed unmerged R1 FASTQs
*.r1.fail.fq.gz
unmerged_r2_fq_pass
${prefix}_r2.fq.gz:file
Passed unmerged R2 FASTQs
*.r2.fq.gz
unmerged_r2_fq_fail
${prefix}_r2.fail.fq.gz:file
Failed unmerged R2 FASTQs
*.r2.fail.fq.gz
log
*.log:file
Log file of command
*.log
versions
versions.yml:file
File containing software versions
versions.yml
