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Fig. 4 | BMC Bioinformatics

Fig. 4

From: Reverse engineering environmental metatranscriptomes clarifies best practices for eukaryotic assembly

Fig. 4

Clustering the designer assembly scales assembly size and number of annotations recovered. Clustering was performed on the original “designer metatranscriptome” set of contigs from the MMETSP references using the mmseqs2 tool [50]. The effect of coverage level (color) and percentage identity (size) via mmseqs2 on the file size, number of sequences annotated at the genus level, and number of sequences with functional annotations relative to the unclustered assembly was examined. The boxplot underlying each set of points highlights the distribution of ratios relative to the unclustered assembly. eukrhythmic uses a coverage level of 0.98 and sequence identity of 1 for mmseqs2 clustering. See Additional file 1: Fig. S1 for a more detailed graphical summary of the influence of sequence identity and coverage on the size of the recovered assembly and its functional and taxonomic annotations

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