Demultiplex Illumina BCL files
meta
Groovy Map containing sample information e.g. [ id:‘test’, single_end
samplesheet
Input samplesheet
*.{csv}
run_dir
Input run directory containing RunInfo.xml and BCL data Could be a directory or a tar of the directory
versions
File containing software versions
versions.yml
fastq
Demultiplexed sample FASTQ files
**_S*_L00?_R?_00?.fastq.gz
fastq_idx
Optional demultiplexed index FASTQ files
**_S*_L00?_I?_00?.fastq.gz
undetermined
Optional undetermined sample FASTQ files
Undetermined_S0_L00?_R?_00?.fastq.gz
undetermined_idx
Optional undetermined index FASTQ files
Undetermined_S0_L00?_I?_00?.fastq.gz
reports
Demultiplexing Reports
Reports/*.{csv,xml}
logs
Log files
Logs/*.{log,txt}
interop
Interop files
*.{bin}
