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Table 2 Overview of transcriptome assembly stages

From: The draft genome and transcriptome of Cannabis sativa

Library   ABySS a)    Inchworm a)  
  N50 (kb) Max (kb) b) Total (Mb) c) N50 (kb) Max (kb) b) Total (Mb) c)
PK-Mid-flower 0.73 6.55 19.9 1.36 7.42 26.5
PK-Early-flower 0.64 4.94 16.7 1.06 6.11 24.0
PK-Pre-flower 0.80 6.74 21.4 1.56 7.89 28.0
PK-Shoot 0.69 6.16 20.2 1.34 7.41 26.8
PK-Stem 0.80 6.55 22.9 1.67 11.55 29.3
PK-Root 0.43 4.03 15.3 0.64 7.21 22.5
PK-tissue-all 0.62 8.74 26.7 - - -
PK-normalized1 - - - 1.78 10.96 31.1
PK-normalized2 - - - 1.72 7.89 34.2
PK-normalized3 - - - 1.84 8.19 34.7
PK-normalized4 - - - 1.71 7.10 32.1
PK-normalized-all 1.18 7.31 42.1 - - -
Library   Combined     
  N50 (kb) Max (kb) Total (Mb)    
Non-redundant 1.65 11.55 49.4    
Cap3 overlap merging 1.80 12.11 41.0    
  1. a) Fields marked with '-' indicate library/assembly combinations that were not analyzed. Statistics are shown for transcripts that passed initial QC and that could be oriented according to coding strand.
  2. b) Size of largest transcript in the assembly
  3. c) Total number of non-gap bases in the assembly
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