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

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

Output Ports

Icon
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

  • No workflows found

Links

Developers

You want to see the source code for this node? Click the following button and we’ll use our super-powers to find it for you.

Installation

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

v5.4

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: 3.2.0.202411141610
On NodePit since: 2024-12-06
Last update: 2024-12-21
KNIME versions: v5.4, 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

Deploy, schedule, execute, and monitor your KNIME workflows locally, in the cloud or on-premises – with our brand new NodePit Runner.

Try NodePit Runner!