SlimmBuild

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

Input ports

1. Type: URI Object
   names []
   NCBI's names.dmp file which contains the mapping of taxaid to name []
2. Type: URI Object
   nodes []
   NCBI's nodes.dmp file which contains the taxonomic tree. []
3. Type: URI Object
   argument-0 [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]
   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]
4. Type: URI Object
   argument-1 []
   one ore more accession to taxa id mapping files dowloaded from ncbi (separated by space.) []

Output ports

1. Type: URI Object
   output-file [sldb]
   The path to the output file (default slimm_db.sldb) [sldb]