RNAMassCalculator

Calculates masses, mass-to-charge ratios and sum formulas of RNA sequences

Options

version: Version of the tool that generated this parameters file.
in_seq: List of RNA sequences (mutually exclusive to 'in')
charge: List of charge states; required if 'in_seq' is given
format: Output format ('list': human-readable list, 'table': CSV-like table, 'mass_only': mass values only, 'mz_only': m/z values only, 'formula_only': sum formula only)
average_mass: Compute average (instead of monoisotopic) oligonucleotide masses
fragment_type: For what type of sequence/fragment the mass should be computed
separator: Field separator for 'table' output format; by default, the 'tab' character is used
log: Name of log file (created only when specified)
debug: Sets the debug level
threads: Sets the number of threads allowed to be used by the TOPP tool
no_progress: Disables progress logging to command line
force: Overrides tool-specific checks
test: Enables the test mode (needed for internal use only)

: Input file with RNA sequences and optionally charge numbers (mutually exclusive to 'in_seq') [txt,opt.]

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

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

v5.3

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

Plugin provider: Freie Universitaet Berlin, Universitaet Tuebingen, ZIB (GKN-Team) and the OpenMS Team

Plugin version: 3.2.0.202409181756

On NodePit since: 2024-10-17

Last update: 2024-11-21

KNIME versions: v5.3, v5.2, v5.1, v4.7, v4.6, v4.5, v4.4, v4.3, v4.2, v4.1, v4.0

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