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Table 1 Summary statistics among seven highest performing assembly strategies

From: Optimizing de novo assembly of short-read RNA-seq data for phylogenomics

Assembly strategies Percent reference coverage (bp) Percent reference genes assembled to >200 bp Percent reference genes assembled to ≥80% Percent chimeric Redundancy
Oases filter1-cap3-blast 26.50% 45.70% 10.52% 0.96% 2.42
Oases filter1&3-cap3-blast 27.67% 45.65% 11.73% 1.11% 2.41
SOAPdenovo-Trans k=21-cap3-blast 32.75% 45.62% 16.20% 2.21% 1.78
SOAPdenovo-Trans contigs cap3-blast 30.64% 46.62% 14.34% 1.06% 2.19
Trans-ABySS MK-cap3-blast 28.34% 42.93% 13.01% 1.39% 2.16
Trinity blast 26.22% 47.06% 9.58% 1.69% 3.11
Trinity pickH-cap-blast 23.19% 45.38% 8.35% 0.92% 1.89
  1. The best score for each column, measured as highest in reference coverage and lowest in chimera rate and redundancy, is in bold.