Dataset Open Access

Silva taxonomic training data formatted for DADA2 (Silva version 128)

Benjamin Callahan

These DADA2-formatted training fasta files were derived from the Silva Project's version 128 release. They are available under the Silva dual-licensing model for academia and commercial users: https://www.arb-silva.de/silva-license-information/

These fastas were generated by the following commands (using the dada2 R package version 1.5.2):

path <- "~/Desktop/Silva/Silva.nr_v128"
dada2:::makeTaxonomyFasta_Silva(file.path(path, "silva.nr_v128.align"), file.path(path, "silva.nr_v128.tax"), "~/tax/silva_nr_v128_train_set.fa.gz")

dada2:::makeSpeciesFasta_Silva("~/Desktop/Silva/SILVA_128_SSURef_tax_silva.fasta.gz", "~/tax/silva_species_assignment_v128.fa.gz")

Changes in Version 2: A typo in the genus name Escherichia was corrected. 

These files are derived from the Silva database, and their use is subject to the Silva dual-licensing model for academia and commercial users: https://www.arb-silva.de/silva-license-information/
Files (88.4 MB)
Name Size
SILVA_LICENSE
md5:feff0d7cb0962e6e21161a4bcadeb22f
1.7 kB Download
silva_nr_v128_train_set.fa.gz
md5:26b23e13ed310174ae5563e8f7258ecc
54.1 MB Download
silva_species_assignment_v128.fa.gz
md5:f67d7d9443312ca38a9fbf61fc744ae4
34.3 MB Download

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