4. Assemblies of the bumble bee, Bombus impatiens (estimated size 250 Mbp). E-size is a statistic calculated on contigs and scaffolds and is designed to answer the question: if you choose a location (a base) in the reference genome at random, what is the expected size of the contig or scaffold containing that location? E-size is computed as: ∑G=(LC)2/G,where LC is the length of contig C, and G is the genome length estimated by the sum of all contig lengths.
|
Assembler |
Contigs |
Scaffolds |
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|
Num |
N50 (kb) |
E-size (kb) |
Num |
N50 (kb) |
E-size (kb) |
|
|
ABySS |
40,451 |
14.4 |
20.9 |
34,298 |
18 |
27 |
|
Allpaths-LG |
Could not run: incompatible library types |
|||||
|
CABOG |
22,107 |
23.5 |
34.2 |
1,191 |
1,125 |
1,367 |
|
MSR-CA |
21,885 |
32.4 |
46.9 |
2,551 |
1,246 |
1,528 |
|
SGA |
Program crashed: cause unclear |
|||||
|
SOAPdenovo |
15,957 |
57.1 |
78.2 |
5,800 |
1,374 |
1,608 |
|
Velvet |
Program crashed: insufficient memory (256 GB) |
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