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

SLIMM Species Level Identification of Microbes from Metagenomes

See http://www.seqan.de/projects/slimm for more information.

(c) Copyright 2014-2017 by Temesgen H. Dadi.

Web Documentation for SlimmBuild


Turn this option off to disable version update notifications of the application.
maximum number of mapping to load to memory. (default=1000000)
Enable verbose output.

Input Ports

NCBI's names.dmp file which contains the mapping of taxaid to name []
NCBI's nodes.dmp file which contains the taxonomic tree. []
A multi-fasta file used as a reference for mapping [fq,fq.bgzf,fq.gz,fq.bz2,fastq,fastq.bgzf,fastq.gz,fastq.bz2,fa,fa.bgzf,fa.gz,fa.bz2,fasta,fasta.bgzf,fasta.gz,fasta.bz2,faa,faa.bgzf,faa.gz,faa.bz2,ffn,ffn.bgzf,ffn.gz,ffn.bz2,fna,fna.bgzf,fna.gz,fna.bz2,frn,frn.bgzf,frn.gz,frn.bz2,embl,embl.bgzf,embl.gz,embl.bz2,gbk,gbk.bgzf,gbk.gz,gbk.bz2,raw,raw.bgzf,raw.gz,raw.bz2,sam,sam.bgzf,sam.gz,sam.bz2,bam]
one ore more accession to taxa id mapping files dowloaded from ncbi (separated by space.) []

Output Ports

The path to the output file (default slimm_db.sldb) [sldb]


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

Best Friends (Incoming)

Best Friends (Outgoing)


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