Published June 18, 2019 | Version 1.0.0
Dataset Open

Nematode ITS2 Database

Creators

  • 1. University of Calgary

Description

Nematode ITS2 database

These are the sequence and taxonomy files for the Nematode ITS2 database.  This database was created with markerDB. Please see that repository for full details on the file formats.  The main database consists of the "seqs_nr.fasta" and the associated "taxonomy_nr.txt".  These contain the non-redundant ITS2 sequences.

The database is available in some other common formats used for assigning taxonomy and are listed below.

  • dada2: dada2’s assignTaxonomy function
  • rdp: to train a custom RDP database with the rRDP Bioconductor package (this is pretty much the same as assignTaxonomy)
  • mothur: a fasta file and paired mothur taxonomy file. Works with the Nemabiome pipeline. An alignment is also written out that should work with mothur, but can also be used for other pipelines as needed.
  • idtaxa: a fasta file and taxonomy file for IDTAXA.

Files

Nematode_ITS2_1.0.0_db_info.txt

Files (72.3 MB)

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