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FxBamCoverage

Compute read coverage and C+G content for a genome.

Web Documentation for FxBamCoverage

Options

version-check: Turn this option off to disable version update notifications of the application.
window-size: Set the size of the non-overlapping windows in base pairs.

Input Ports

: Path to the reference file. [fasta,fa]
: Path to the mapping file to analyze. [sam,bam]

Output Ports

: Path to the resulting file. If omitted, result is printed to stdout. [coverage.tsv]

Popular Predecessors

Popular Successors

Views

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

Workflows

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Developers

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Installation

To use this node in KNIME, install the extension SeqAn from the below update site following our NodePit Product and Node Installation Guide:

v4.7

A zipped version of the software site can be downloaded here.

Plugin provider: Freie Universitaet Berlin, Universitaet Tuebingen, and the SeqAn Team

Plugin version: 2.4.1.202004061533

On NodePit since: 2022-12-06

Last update: 2024-12-23

KNIME versions: From v3.6 to v4.7

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