Published February 19, 2023
| Version 1.1.2
Dataset
Open
BCdatabaser - large.fungi.none.2023-02-18.zip
Authors/Creators
Description
Parameters:
- --marker-search-string 'large subunit ribosomal' OR '26S ribosomal' OR 'D1/D2 domain' OR LSU
- --taxonomic-range Fungi
- --sequence-length-filter 100:2000
- --sequences-per-taxon 9
Notes
This dataset was automatically created with data from NCBI using the BCdatabaser tool
Files
large.fungi.none.2023-02-18.zip
Files
(112.7 MB)
| Name | Size | Download all |
|---|---|---|
|
md5:9158bbdcc706f78a16352c11aa97c25f
|
112.7 MB | Preview Download |
Additional details
Related works
- Cites
- 10.32942/osf.io/cmfu2 (DOI)
- 10.5281/zenodo.1462861 (DOI)
- 10.1186/1471-2105-12-385 (DOI)
References
- Keller et al. (2019) BCdatabaser: on-the-fly reference database creation for (meta-)barcoding. EcoEvoRxiv (2019); https://doi.org/10.32942/osf.io/cmfu2 - https://github.com/molbiodiv/bcdatabaser
- eutils: Sayers E. E-utilities Quick Start. 2008 Dec 12 [Updated 2018 Oct 24]. In: Entrez Programming Utilities Help [Internet]. Bethesda (MD): National Center for Biotechnology Information (US); 2010-. Available from: https://www.ncbi.nlm.nih.gov/books/NBK25500/
- NCBI::Taxonomy: Förster et al. https://github.com/greatfireball/NCBI-Taxonomy - Förster F. greatfireball/NCBI-Taxonomy v0.90. Zenodo. 2018 Oct 15; https://doi.org/10.5281/zenodo.1462861
- SeqFilter: Hackl et al. https://github.com/BioInf-Wuerzburg/SeqFilter
- dispr: Cofield et al. https://github.com/douglasgscofield/dispr
- Krona: Ondov BD, Bergman NH, and Phillippy AM. Interactive metagenomic visualization in a Web browser. BMC Bioinformatics. 2011 Sep 30; 12(1):385.