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Table 2 Comparisons of Schizosaccharomyces pombe transcriptome assemblies of Oases, Trinity and kCombine with k=25 over different values of k-mer coverage cutoff c, with transcripts denoting the number of predicted transcripts, n50 denoting the N50 value of the length of predicted transcripts, blast denoting the number of hits from nucleotide BLAST search of predicted transcripts to different transcripts of the known transcriptome with e-value below 10−100, full denoting the number of predicted transcripts that are full length transcripts in which an entire coding region is included in a BLAST alignment, spec denoting the percentage of positions in the predicted transcripts that are included in a BLAST alignment, unique denoting the number of predicted transcripts that are uniquely mapped as reported by GMAP with the percentage in parentheses, transloc denoting the number of predicted transcripts that are translocated as reported by GMAP with the percentage in parentheses, and memory denoting the physical memory requirement as a power of 2 with Trinity using 32 CPU

From: A divide-and-conquer algorithm for large-scale de novo transcriptome assembly through combining small assemblies from existing algorithms

c Transcripts n50 Blast Full Spec Unique Transloc Memory
Oases         
10 8244 6520 6515 5623 91.9% 7268 (88.2%) 1084 (13.1%) 128 GB
20 6509 5412 6458 4597 93.1% 5959 (91.6%) 672 (10.3%) 128 GB
kCombine(Oases)         
5 8585 2705 6227 5223 94.8% 8019 (93.4%) 646 (7.5%) 8 GB
10 6603 2620 5767 4443 95.2% 6173 (93.5%) 472 (7.1%) 8 GB
Trinity         
5 8568 3368 6490 5279 93.7% 8228 (96.0%) 150 (1.8%) 512 GB
10 7313 2604 6415 4271 95.1% 7064 (96.6%) 156 (2.1%) 512 GB
kCombine(Trinity)         
3 6862 2319 6152 3858 96.5% 6628 (96.6%) 262 (3.8%) 8 GB
5 6618 1938 5898 3182 97.1% 6415 (96.9%) 166 (2.5%) 8 GB