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Table 3 Basic statistics of Trinity transcripts using original Inchworm and MapReduce-Inchworm using the mouse RNA-seq data [22]

From: K-mer clustering algorithm using a MapReduce framework: application to the parallelization of the Inchworm module of Trinity

 

original Inchworm

MapReduce-Inchworm

Total trinity genes

55,498

55,047

Total trinity transcripts

80,825

78,719

Percent GC

49.4

49.46

Contig N10

6282

6163

Contig N20

4725

4621

Contig N30

3946

3831

Contig N40

3275

3183

Contig N50

2693

2630

Median contig length

551

558

Average contig

1284.53

1267.98

Total assembled bases

103,822,088

99,814,020

  1. The statistics were calculated using the perl script TrinityStats.pl, included in the original Trinity pipeline
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BMC Bioinformatics

ISSN: 1471-2105

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