RNA Deep Virome Assemblage
lukepereira edited this page Mar 29, 2023
·
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The RNA Deep Virome Assemblage
(RDVA) are versioned releases of the total set of assemblies generated by Serratus. These datasets are immediately released into the public domain (cc0) under the INSDC policy.
- 3.1 terabytes -
s3://lovelywater2/assembly/rdva/rdva_v0.2.fa.lz4
(link) -
58,557
libraries;12,534,144,450
contigs - Added "ribozyviria+" datasets from
drz0
search. - Depleted datasets retracted from SRA in
v0.1
- 2.4 terabytes -
s3://lovelywater2/assembly/rdva/rdva_v0.1.fa.lz4
(link) -
59,256
libraries; 13,453,787,906` contigs - Initial release amalgamating Serratus assembly datasets
If you use the RDVA
please cite our preprint:
Extant hybrids of RNA viruses and viroid-like elements
Marco Forgia, Beatriz Navarro, Stefania Daghino, Amelia Cervera, Andreas Gisel, Silvia Perotto, Dilzara N. Aghayeva, Mary Funmilayo Akinyuwa, Emanuela Gobbi, Ivan N. Zheludev, Robert C. Edgar, Rayan Chikhi, Massimo Turina, Artem Babaian, Francesco Di Serio, Marcos de la Peña
bioRxiv 2022.08.21.504695; doi: https://doi.org/10.1101/2022.08.21.504695
In addition, if you perform a focused analysis of an individual dataset, please cite the SRA accession and make a reasonable effort to cite any associated studies.
- Accessing Serratus Data
- Data Types
- Sequence References
- Running Serratus
- Finding Novel Viruses (tutorials)
- Papers using Serratus
- Containers
- Summarizer usage
- Cloud Budgeting
- Data Policy
- Serratus Annotation
- Serratus Assembly
- FLOM reference
- Proteome guided assembly for high divergence low coverage genomes
- PRICE de novo assembly
- Taxonomy case study of misannotated Genbank entry
- Taxonomy prediction
- Tree placement and taxonomy data
- Design of nucleotide summarizer scoring and-depth estimates
- Cov-phylogenetic-tree-quality-by-monophylicity
- Running a Treesearch
- Finding-transfer---recombination-events-in-the-Spike-protein
- Serratus SQL Database Management
- Trees-and-alignments-for-Ribovirus-orders-and-families
- Viral-contigs-containing-RdRP