0 ×

Dfi

Generic Workflow Nodes for KNIME: SeqAn version 2.4.1.202004061533 by Freie Universitaet Berlin, Universitaet Tuebingen, and the SeqAn Team

The Deferred Frequency Index (DFI) is a tool for string mining under frequency constraints, i.e., predicates that evaluate solely the frequency of a pattern occurrence in the data. The frequency of a pattern is defined as the number of distinct sequences in a database that contain the pattern at least once. Currently the implementation contains 3 different predicates and can easily be extended by user-defined frequency predicates. The frequencies are calculated during the construction of a suffix tree over all databases, which enables to limit the index construction to a problem-specific minimum referred to as the optimal monotonic hull.

Web Documentation for Dfi

Options

version-check: Turn this option off to disable version update notifications of the application.
minmax: Set minimal and maximal frequency per database.
support: Minimal support in the first (with --growth) or all (with --entropy) databases.
growth: Minimal support ratio between the first and second databases.
entropy: Maximal entropy of support values of all databases.
alphabet: Specify database alphabet.
maximal: Output only left and right maximal substrings.

Input Ports

: Database files in Fasta/Fastq or text format (lines are strings). [fq,fastq,fa,fasta,faa,ffn,fna,frn,embl,gbk,raw,sam]

Output Ports

: Change output filename. Default: <stdout>. [txt]

Views

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

Best Friends (Incoming)

Input File (25 %)
Input Files (25 %)
Bisar (25 %)
Double Widget (25 %)

Best Friends (Outgoing)

ComputeGain (50 %)
Stellar (50 %)

Installation

To use this node in KNIME, install SeqAn from the following update site:

KNIME 4.3

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

You don't know what to do with this link? Read our NodePit Product and Node Installation Guide that explains you in detail how to install nodes to your KNIME Analytics Platform.

Wait a sec! You want to explore and install nodes even faster? We highly recommend our NodePit for KNIME extension for your KNIME Analytics Platform. Browse NodePit from within KNIME, install nodes with just one click and share your workflows with NodePit Space.

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.