MasonMethylation

Simulate methylation levels for IN.fa and write them to OUT.fa.

Web Documentation for MasonMethylation

Options

version-check
Turn this option off to disable version update notifications of the application.
quiet
Low verbosity.
verbose
Higher verbosity.
very-verbose
Highest verbosity.
seed
Seed for RNG.
methylation-levels
Enable methylation level simulation.
meth-cg-mu
Median of beta distribution for methylation level of CpG loci.
meth-cg-sigma
Standard deviation of beta distribution for methylation level of CpG loci.
meth-chg-mu
Median of beta distribution for methylation level of CHG loci.
meth-chg-sigma
Standard deviation of beta distribution for methylation level of CHG loci.
meth-chh-mu
Median of beta distribution for methylation level of CHH loci.
meth-chh-sigma
Standard deviation of beta distribution for methylation level of CHH loci.

Input Ports

Icon
Input FASTA file with genome. [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]
Icon
Input FASTA file with genome. [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]

Output Ports

This node has no output ports

Popular Predecessors

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Views

MasonMethylation Std Output
The text sent to standard out during the execution of MasonMethylation.
MasonMethylation Error Output
The text sent to standard error during the execution of MasonMethylation. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)

Workflows

  • No workflows found

Links

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