Convert bwa SA coordinate file to SAM format
meta:map
Groovy Map containing sample information. e.g. [ id:‘test’, single_end
reads:file
FASTQ files specified alongside meta in input channel.
*.{fastq,fq}.gz
sai:file
SAI file specified alongside meta and reads in input channel.
*.sai
meta2:map
Groovy Map containing reference information. e.g. [ id:‘test’, single_end
index:directory
Directory containing BWA index files (amb,ann,bwt,pac,sa) from BWA_INDEX
bwa/
bam
Groovy Map containing sample information e.g. [ id:‘test’, single_end
*.bam:file
BAM file
*.bam
versions
versions.yml:file
File containing software versions
versions.yml
BWA is a software package for mapping DNA sequences against a large reference genome, such as the human genome.
