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Table 6 Transcriptome assemblies of kCombine based on Oases and Trinity in Cochliomyia macellaria with k=25 over different values of k-mer coverage cutoff c, with locus denoting the number of predicted locus, transcripts denoting the number of predicted transcripts, n50 denoting the N50 value of the length of predicted transcripts, blastx denoting the number of hits from translated BLAST search of predicted transcripts to different transcripts of the known Drosophila melanogaster transcriptome with e-value below 10−20, and memory denoting the physical memory requirement as a power of 2, with the value to the left of “+” indicating the memory requirement of the independent assembly of each individual library by Oases and Trinity, and the value to the right of “+” indicating the memory requirement of the merging step by kCombine

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

c

Locus

Transcripts

n50

Blastx

Memory

kCombine(Oases)

     

10

60477

140681

2502

20385

256 GB + 4 GB

20

42334

101421

2349

20579

256 GB + 4 GB

50

30858

67217

1924

20101

256 GB + 4 GB

kCombine(Trinity)

     

5

46342

153790

1961

22996

512 GB + 16 GB

10

34614

111379

1934

22874

512 GB + 16 GB

20

28756

85093

1567

22595

512 GB + 16 GB