DatabaseFilter

Filters a protein database (FASTA format) based on identified proteins

Web Documentation for DatabaseFilter

Options

version
Version of the tool that generated this parameters file.
method
Switch between white-/blacklisting of protein IDs
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 Ports

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Input FASTA file, containing a protein database. [fasta]
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Input file containing identified peptides and proteins. [idXML,mzid]

Output Ports

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Output FASTA file where the reduced database will be written to. [fasta]

Popular Predecessors

Popular Successors

Views

DatabaseFilter Std Output
The text sent to standard out during the execution of DatabaseFilter.
DatabaseFilter Error Output
The text sent to standard error during the execution of DatabaseFilter. (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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Links

Developers

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Installation

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, v3.7, v3.6

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