Lofreq subcommand to for insert base and indel alignment qualities
meta:map
Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]
[ id:'sample1', single_end:false ]
bam:file
Sorted BAM/CRAM/SAM file
*.{bam,cram,sam}
fasta:file
Reference genome FASTA file
*.{fasta}
bam
*.bam:file
BAM/CRAM/SAM file with base and indel alignment qualities
versions
versions.yml:file
File containing software versions
versions.yml
A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data
