ALLPATHS
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Application data |
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| Biological application domain(s) | Sequence assembly (de novo assembly) |
|---|---|
| Principal bioinformatics method(s) | Sequence assembly, Sequence assembly (de-novo assembly) |
| Maintained? | Yes |
| Input format(s) | Fasta, Fastq |
Summary: De novo assembly of whole-genome shotgun microreads.
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Previous versions of ALLPATHS are superseded by ALLPATH-LG. The latest version works on both small and large (mammalian size) genomes. To use it, you should first generate ~100 base Illumina reads from two libraries: one from ~180 bp fragments, and one from ~3000 bp fragments, both at about 45x coverage. Sequence from longer fragments will enable longer-range continuity.
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References
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