Paper of interest comparing taxonomies of SILVA, RDP, Greengenes, NCBI and OTT

By Jonathan Eisen Posted in Bioinformatics Scholarly Literature (Journals, Books, Reports)

Posted on March 21, 2017March 21, 2017

Just a quick post here. There is a paper of interest I thought I would call attention to: Source: SILVA, RDP, Greengenes, NCBI and OTT — how do these taxonomies compare? | BMC Genomics by Monika Balvočiūtė and Daniel H. Huson Abstract: Background A key step in microbiome sequencing analysis is read assignment to taxonomic units. …

Submit data to NCBI’s Short Read Archive

By Guillaume Jospin Posted in Bioinformatics Methods and Tools

Posted on January 20, 2015February 3, 2018

I was recently contacted by a SRA curator to submit the raw pacbio datasets that go with genomes that were deposited to NCBI. I did go through with the submission and will share what I did and my experience doing so. Be prepared to answer a lot of questions regarding your project as well as …