diff --git a/src/snpeff/config.vsh.yaml b/src/snpeff/config.vsh.yaml index 1da71693..154a104e 100644 --- a/src/snpeff/config.vsh.yaml +++ b/src/snpeff/config.vsh.yaml @@ -51,14 +51,16 @@ argument_groups: - name: -input_format alternatives: [-i] type: string - description: Input format [ vcf, bed ]. Default: VCF. + description: | + Input format [ vcf, bed ]. Default: VCF. - name: -fileList type: boolean_true description: Input actually contains a list of files to process. - name: -output_format alternatives: [-o] type: string - description: Ouput format [ vcf, gatk, bed, bedAnn ]. Default: VCF. + description: | + Output format [ vcf, gatk, bed, bedAnn ]. Default: VCF. - name: -stats alternatives: [-s, -htmlStats] type: boolean_true @@ -234,7 +236,8 @@ argument_groups: description: Only use protein coding transcripts. - name: -onlyTr type: file - description: Only use the transcripts in this file. Format: One transcript ID per line. + description: | + Only use the transcripts in this file. Format: One transcript ID per line. example: file.txt - name: -reg type: string @@ -242,10 +245,12 @@ argument_groups: - name: -ss alternatives: [-spliceSiteSize] type: integer - description: Set size for splice sites (donor and acceptor) in bases. Default: 2. + description: | + Set size for splice sites (donor and acceptor) in bases. Default: 2. - name: -spliceRegionExonSize type: integer - description: Set size for splice site region within exons. Default: 3 bases. + description: | + Set size for splice site region within exons. Default: 3 bases. - name: -spliceRegionIntronMin type: integer description: |