Databases for virus metagenomics

This is a collection of reference database indices for virus metagenomics. File: nt_2021_12_habv_cent.tar.gz Database: Centrifuge index for NCBI nt Archaea + nt Bacteria + nt Viruses + human GRCh38 reference assembly Description: NCBI nt fasta database and human reference assembly GRCh38 were download on 30/12/2021. Sequences for Archaea, Bacteria and Viruses were selected from the nt database using NCBI taxonomy and the latest human assembly was added to this collection. Centrifuge index was compiled with centrifuge-build. File: nt_2020_12_vi_blastn.tar.gz Data: Blastn index for NCBI nt virus sequences Description: NCBI nt fasta database was downloaded on 13/12/2020. Virus sequences were selected using NCBI taxonomy. Blastn index was compiled with makeblastdb. Project website: https://www2.helsinki.fi/en/projects/lazypipe Citing: Ilya Plyusnin, Ravi Kant, Anne J. Jaaskelainen, Tarja Sironen, Liisa Holm, Olli Vapalahti, Teemu Smura. (2020) Novel NGS Pipeline for Virus Discovery from a Wide Spectrum of Hosts and Sample Types. Virus Evolution, veaa091, https://doi.org/10.1093/ve/veaa091.