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Published by zywang on

The present and future of de novo whole-genome assembly

Jang-il Sohn and Jin-Wu Nam

‘Table 1. Summary of short read assemblers’

  1. Speed
  2. Memory efficiency
  3. N50 length
  4. Input data type
  5. Assembly steps

‘Table 2. Strategies for challenges’

  1. Assembly approach
  2. Sequencing error
  3. Complexity reducing
  4. Repeat resolving
  5. Uneven depth
  6. RAM memory

‘Table 3. Comparison of computational costs of short read assemblers’

  1. Genome
  2. depth
  3. Peak memory
  4. Relative speed
  5. Relative computational cost

‘Table 4. Assembly pipelines for long SMS reads’

‘Figure 8. The de novo sort read assemblies of the bird (M. undulatus), fish (M. zebra) and snake (B. constrictor) genomes were reanalyzed using the Supplementary Table of Assemblathon2’ (data visualization)

 

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