The SILVA database project provides comprehensive, quality checked and regularly updated databases of aligned small (16S / 18S, SSU) and large subunit (23S / 28S, LSU) ribosomal RNA (rRNA) sequences for all three domains of life (Bacteria, Archaea and Eukarya).
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Silva | beta.arb-silva.de Reviews
https://beta.arb-silva.de
The SILVA database project provides comprehensive, quality checked and regularly updated databases of aligned small (16S / 18S, SSU) and large subunit (23S / 28S, LSU) ribosomal RNA (rRNA) sequences for all three domains of life (Bacteria, Archaea and Eukarya).
beta.arb-silva.de
SINA tutorial
https://beta.arb-silva.de/documentation/sina-tutorial
Paste your sequence into the text field or choose an file to upload. Your sequence data must be in FASTA. Choose the basic settings. Select the appropriate RNA type (SSU/LSU). FASTA with meta-data will add additional meta-data to the header of each sequence (You can also get the same data in CSV format from the result tables). Using an compression reduces the file size and download time. The ZIP format can be used on most systems, the TGZ format has a higher compression rate. The SINA alignment score.
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Important Remarks to handle Custom Generated Files. Scan for Unknown Fields. In the Species Information window of ARB when you open a custom-made ARB database for the first time. To merge your custom-made ARB database with your personal ARB database click on Merge two ARB Databases in the ARB Intro window. Detailed information can be found in the. Users from non-academic/commercial environments. Should have a look at the. Us or check our Twitter.
SOPPI
https://beta.arb-silva.de/projects/soppi
A Standard Operating Procedure for Phylogenetic Inference (SOPPI). Phylogenetic analysis is currently used worldwide for taxonomic classification and identification of microorganisms. Despite the countless trees that have been reconstructed and published over the last decades, no user-friendly compilation of recommendations to standardize the data analysis and tree reconstruction process have been published, so far. Operating Procedure for Phylogenetic Inference. Contact (at) arb-silva.de. First of all -...
Projects
https://beta.arb-silva.de/projects
Overview on our ARB/SILVA-related Projects. SSU Ref NR (non-redundant). For users interested in representative (rRNA) sequence collections, the rapid growth of the datasets has led to immense hardware requirements paired with a significantly increased amount of time to analyse the data. To compensate for this, the SILVA project now offers a non-redundant version. Of the SSU Ref dataset ( SILVA SSU Ref NR. Although significantly reduced in size, the SSU Ref NR is still a representative dataset. The projec...
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Silva
Welcome to the SILVA rRNA database project. A comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data. Provides comprehensive, quality checked and regularly updated datasets of aligned small (16S/18S, SSU) and large subunit (23S/28S, LSU) ribosomal RNA (rRNA) sequences for all three domains of life (. SILVA are the official databases of the software package ARB. For more background information. Check out our service for Next Generation Amplicon data. Yilmaz P, Parfrey L...
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