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Table 1 Genome and transcriptome contiguity scores. Statistics for the current WTSI reference sequence are given for comparison

From: De novo assembly of the complex genome of Nippostrongylus brasiliensis using MinION long reads

Description Size (kb) N50 (kb) N90 (kb) Minimum
(kb)
Maximum
(kb)
[Contigs/genes] [L50] [L90]
WTSI reference 294,400 33.5 4.3 0.5 394.2
[29,375] [2024] [11,638]
Uncorrected (Canu only)* 347,186 209.2 38.9 1.7 2048.3
[3583] [415] [1964]
Trinity [de novo] 180,448 0.8 0.3 0.2 21.5
[291,671/172,480]** [53,613] [219,557]
Trinity [genome-guided] 249,065 1.2 0.3 0.2 22.0
[352,994/236,865]** [50569] [245,765]
Trinity [expression-filtered] 71,457 2.0 0.7 0.2 22.0
[52,302] [11,072] [34,924]
WGA, Canu only 119,196 53.1 17.3 1.8 388.2
[3280] [647] [2199]
  1. WGA whole-genome amplification, WTSI Wellcome Trust Sanger Institute
  2. *Local read correction has minimal effect on the contiguity statistics
  3. **In the absence of expert curation, these values are patently overestimates (e.g., in the genome-guided assembly, genes near structural variant forks will be counted more than once)