Calling lowest common ancestors from multi-mapped reads in SAM/BAM/CRAM files
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam
BAM/CRAM/SAM file
*.{bam,cram,sam}
bai
BAM/CRAM/SAM index
*.{bai,.crai}
database
Directory containing the sam2lca database
*
versions
File containing software versions
versions.yml
csv
CSV file containing the sam2lca results
*.csv
json
JSON file containing the sam2lca results
*.json
Optional sorted BAM/CRAM/SAM file annotated with LCA taxonomic informations
*.bam
Lowest Common Ancestor on SAM/BAM/CRAM alignment files
