Version Differences for Read Depths

(→Evaluation)
(→Evaluation)
Line 166:
  |}    |} 
       
       
       
  {| {{table}} border="1"    {| {{table}} border="1" 
  | align="center" style="background:#f0f0f0;"|'''Statistics without reference'''    | align="center" style="background:#f0f0f0;"|'''Statistics without reference''' 
Line 175:
  | align="center" style="background:#f0f0f0;"|'''2_118X_25X_asm.ctg'''    | align="center" style="background:#f0f0f0;"|'''2_118X_25X_asm.ctg''' 
  |-    |- 
- | # contigs||106||80||81||71||81||54   + | # contigs||||||||||||  
  |-    |- 
- | Largest contig||762045||757702||767781||405645||520095||570062   + | Largest contig||||||||||||  
  |-    |- 
- | Total length||5168000||5080370||4918962||4799524||4832961||4725680   + | Total length||||||||||||  
  |-    |- 
- | N50||419161||405539||331262||193986||186504||210927   + | N50||||||||||||  
  |-    |- 
  | style="background:#f0f0f0;"| Misassemblies||||||||||||    | style="background:#f0f0f0;"| Misassemblies|||||||||||| 
Line 187:
- | # misassemblies||13||18||15||9||16||16   + | # misassemblies||||||||||||  
  |-    |- 
- | Misassembled contigs length||1591856||1751860||1703983||165469||616747||1468075   + | Misassembled contigs length||||||||||||  
  |-    |- 
  | Mismatches||||||||||||    | Mismatches|||||||||||| 
Line 193:
- | # mismatches per 100 kbp||2.44||1.83||5.08||4.34||6.28||6.08   + | # mismatches per 100 kbp||||||||||||  
  |-    |- 
- | # indels per 100 kbp||0.88||0.82||6.34||2.14||5.61||2.93   + | # indels per 100 kbp||||||||||||  
  |-    |- 
- | # N's per 100 kbp||0.48||0.04||0.94||0.02||0.43||0.08   + | # N's per 100 kbp||||||||||||  
  |-    |- 
  | style="background:#f0f0f0;"| Genome statistics||||||||||||    | style="background:#f0f0f0;"| Genome statistics|||||||||||| 
Line 201:
- | Genome fraction (%)||100||100||99.652||98.76||99.567||99.194   + | Genome fraction (%)||||||||||||  
  |-    |- 
- | Duplication ratio||1.116||1.098||1.065||1.048||1.047||1.028   + | Duplication ratio||||||||||||  
  |-    |- 
- | # genes||4495 + 2 part||4495 + 2 part||4475 + 16 part||4432 + 31 part||4458 + 30 part||4434 + 43 part   + | # genes|| + part|| + part|| + part|| + part|| + part|| + part  
  |-    |- 
- | NGA50||418393||405538||235822||193833||194196||199657   + | NGA50||||||||||||  
  |-    |- 
  |}    |} 
       
       
  Three SMRT cells reads were corrected with raw, 100X, and 118 short reads. The PBcR were then filtered to 25X or directly assembled by runCA.    Three SMRT cells reads were corrected with raw, 100X, and 118 short reads. The PBcR were then filtered to 25X or directly assembled by runCA.