NodeMasonVariator

Manipulator

Either simulate variation and write out the result to VCF and optionally FASTA files.

Web Documentation for MasonVariator

Input ports
  1. in-reference [fasta,fa] Type: URI Object
    FASTA file with reference. [fasta,fa]
  2. in-variant-tsv [tsv,txt] Type: URI Object
    TSV file with variants to simulate. See Section on the Variant TSV File below. [tsv,txt,opt.]
  3. out-vcf [vcf] Type: URI Object
    VCF file to write simulated variations to. [vcf]
  4. out-fasta [fasta,fa] Type: URI Object
    FASTA file to write simulated haplotypes to. [fasta,fa,opt.]
  5. meth-fasta-in [fq,fq.bgzf,fq.gz,fastq,fastq.bgzf,fastq.gz,fa,fa.bgzf,fa.gz,fasta,fasta.bgzf,fasta.gz,faa,faa.bgzf,faa.gz,ffn,ffn.bgzf,ffn.gz,fna,fna.bgzf,fna.gz,frn,frn.bgzf,frn.gz,embl,embl.bgzf,embl.gz,gbk,gbk.bgzf,gbk.gz,raw,raw.bgzf,raw.gz,sam,sam.bgzf,sam.gz,bam] Type: URI Object
    Path to load original methylation levels from. Methylation levels are simulated if omitted. [fq,fq.bgzf,fq.gz,fastq,fastq.bgzf,fastq.gz,fa,fa.bgzf,fa.gz,fasta,fasta.bgzf,fasta.gz,faa,faa.bgzf,faa.gz,ffn,ffn.bgzf,ffn.gz,fna,fna.bgzf,fna.gz,frn,frn.bgzf,frn.gz,embl,embl.bgzf,embl.gz,gbk,gbk.bgzf,gbk.gz,raw,raw.bgzf,raw.gz,sam,sam.bgzf,sam.gz,bam,opt.]
Output ports
  1. out-breakpoints [tsv,txt] Type: URI Object
    TSV file to write breakpoints in variants to. [tsv,txt]
  2. meth-fasta-out [fq,fq.bgzf,fq.gz,fastq,fastq.bgzf,fastq.gz,fa,fa.bgzf,fa.gz,fasta,fasta.bgzf,fasta.gz,faa,faa.bgzf,faa.gz,ffn,ffn.bgzf,ffn.gz,fna,fna.bgzf,fna.gz,frn,frn.bgzf,frn.gz,raw,raw.bgzf,raw.gz,sam,sam.bgzf,sam.gz,bam] Type: URI Object
    Path to write methylation levels to as FASTA. Only written if -of/--out-fasta is given. [fq,fq.bgzf,fq.gz,fastq,fastq.bgzf,fastq.gz,fa,fa.bgzf,fa.gz,fasta,fasta.bgzf,fasta.gz,faa,faa.bgzf,faa.gz,ffn,ffn.bgzf,ffn.gz,fna,fna.bgzf,fna.gz,frn,frn.bgzf,frn.gz,raw,raw.bgzf,raw.gz,sam,sam.bgzf,sam.gz,bam]

This node is not contained in any workflows on the KNIME Hub, and not related to any outgoing nodes.