tool for detection and quantification of large mtDNA rearrangements.
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bam{:bash}
:file
MT BAM/SAM file
*.{bam,sam}
bai{:bash}
MT BAM/SAM index file
*.{bai,sai}
ref_gb{:bash}
mtDNA reference genome in Genbank format, optional if empty NC_012920.1.gb will be used
*.{gb}
deletions{:bash}
*deletions.csv{:bash}
csv file with deletion information
*deletions.csv
genes{:bash}
*genes.csv{:bash}
csv file with gene information
*genes.csv
circos{:bash}
*.png{:bash}
png file with circos plot of mt
*.{png}
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
