modules/spades

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

List of input FastQ (Illumina or PacBio CCS reads) files
of size 1 and 2 for single-end and paired-end data,
respectively. This input data type is required.

List of input PacBio CLR FastQ files of size 1.

List of input FastQ files of size 1, originating from Oxford Nanopore technology.

Path to yml file containing read information.
The raw FASTQ files listed in this YAML file MUST be supplied to the respective illumina/pacbio/nanopore input channel(s) in addition to this YML.
File entries in this yml must contain only the file name and no paths.

File or directory with amino acid HMMs for Spades HMM-guided mode.