- Type: URI Objectin-reference [fasta,fa]FASTA file with reference. [fasta,fa]
- Type: URI Objectin-variant-tsv [tsv,txt]TSV file with variants to simulate. See Section on the Variant TSV File below. [tsv,txt,opt.]
- Type: URI Objectout-vcf [vcf]VCF file to write simulated variations to. [vcf]
- Type: URI Objectout-fasta [fasta,fa]FASTA file to write simulated haplotypes to. [fasta,fa,opt.]
- Type: URI Objectmeth-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]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.]
Node / Manipulator
MasonVariator
Node details
Input ports
Output ports
- Type: URI Objectout-breakpoints [tsv,txt]TSV file to write breakpoints in variants to. [tsv,txt]
- Type: URI Objectmeth-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]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]
Extension
The MasonVariator node is part of this extension:
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Related workflows & nodes
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No known nodes available