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Table 4 Transcriptome assemblies of ASplice in the blow fly C. rufifacies over different values of k and k-mer coverage cutoff c

From: A scalable and memory-efficient algorithm for de novo transcriptome assembly of non-model organisms

C. ruf splicing max   >1-node max avg D. mel unique >1-hit max mem
k_c graphs length N50 graphs nodes nodes hits hits graphs hits (GB)
31_50 67945 29763 1482 20900 2066 33 17516 9246 1029 15 13
31_100 52099 27855 1651 16790 2786 27 16237 9090 844 38 10
31_200 41872 35802 1717 13318 2648 21 15013 8776 624 68 9
35_50 66381 55047 1600 20465 5299 33 16470 9235 994 59 13
35_100 53120 34347 1686 16529 1398 26 15965 9062 769 14 10
35_200 41421 35802 1769 13159 4076 21 14693 8723 582 76 9
  1. Max length denotes the length (in nucleotides) of the longest path over all splicing graphs. >1-node graphs denotes the number of splicing graphs with non-linear structures. Max nodes denotes the maximum number of nodes in a splicing graph. Avg nodes denotes the average number of nodes in splicing graphs with non-linear structures. >1-hit graphs denotes the number of splicing graphs that have BLAST hits to more than one gene in D. melanogaster. Max hits denotes the maximum number of different genes that have BLAST hits to a splicing graph. Other notations are the same as in Table 2 except that translated BLAST search to D. melanogaster is performed
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