Eshcherichia coli K12 MG1655
Read source
- The illuminia read data of E coli (Paired-end sequencing library with 200 bp inserts) downloaded from Sequence Read Archive (SRA).
Sequence assembly
- Set1 (Different Assemblers)
| Software |
Version |
Parameters |
Download |
| ABySS |
1.3.0 |
k=31 |
Abyss |
| Velvet |
1.1.04 |
k=29 ins_length=215 cov_cutoff=12 exp_cov=24 min_contig_lgth=100 scaffolding=no |
Velvet |
| Edena |
3 |
m=30 |
Edena |
| SOAPdenovo |
1.05 |
K=29 M=3 |
SOAPdenovo |
| CLC |
4.7.2 |
insert_size_range=194,236 minimum_contig_length=100 |
CLC |
Merged File: Set1_Contig
- Set2 (Different parameters for Abyss - the assembler provides the lowest number of contigs in Set1)
Merged File: Set2_Contig
- Set3 (Different parameters for SOAPdenovo - the assembler provides the largest number of contigs in Set1)
Merged File: Set3_Contig
Contig integrator
Evaluation
- Eshcherichia coli K12 MG1655
- Evaluate by Mauve Assembly Metrics
- How to score genome assemblies using the Mauve system
