call variant and sequencing depth information of the variant
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam
Sorted BAM file
*.bam
fasta
The reference sequence used for mapping and generating the BAM file
*.fa
variants
File containing identified variants in a gff-like format
*.variants.tsv
depths
File containing depth of the variants
*.depth.tsv
versions
File containing software versions
versions.yml
Freyja recovers relative lineage abundances from mixed SARS-CoV-2 samples and provides functionality to analyze lineage dynamics.
