name: hisat2_build description: Builds HISAT2 index for reference genome keywords: - build - index - fasta - genome - reference tools: - hisat2: description: HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes as well as to a single reference genome. homepage: https://daehwankimlab.github.io/hisat2/ documentation: https://daehwankimlab.github.io/hisat2/manual/ doi: "10.1038/s41587-019-0201-4" licence: ['MIT'] input: - fasta: type: file description: Reference fasta file pattern: "*.{fa,fasta,fna}" - gtf: type: file description: Reference gtf annotation file pattern: "*.{gtf}" - splicesites: type: file description: Splices sites in gtf file pattern: "*.{txt}" output: - versions: type: file description: File containing software versions pattern: "versions.yml" - index: type: file description: HISAT2 genome index file pattern: "*.ht2" authors: - "@ntoda03"