Ppyr_RefGenome_v2_blobplot_phylum.Ppyr_RefGenome_v2_blobplot.blobDB.bestsumorder.table.txt (224.35 kB)

Appendix 1-figure 9: Ppyr1.2 Blobtools results

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posted on 13.08.2018 by Timothy Fallon, Sarah Sander Lower
Given the recognized importance of filtering genome assemblies to avoid misinterpretation of the data, we sought to systematically remove assembled non-firefly contaminant sequence from Ppyr1.2. Using the blobtools toolset (v.1.0.1), we taxonomically annotated our scaffolds by performing a blastn (v2.6.0+) nucleotide sequence similarity search against the NCBI nt database, and a diamond (v.0.9.10.111) translated nucleotide sequence similarity search against the of Uniprot reference proteomes (July 2017). Using this similarity information, we annotated the scaffolds with blobtools using parameters “-x bestsumorder --rank phylum”.

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