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title: Assembly
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title: Assembly
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# Metagenomics assemblies #
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# Metagenomics assemblies #
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Metagenomics assemblies are almost inevitable in metagenomic analysis to reduce the fragmentation of informations and highlight sample characteristics. Reads are assembled into contigs using [megahit](https://github.com/voutcn/megahit) a fast assembler optimized for metagenomes and based on k-mers succinct de Bruijn graphs. Megahit is faster and perform comparably as SPAde and metaSPAdes. SPAde assemblies might be better in term of long contigs and ultra long contigs, it's also show a greater rate of missassemblies which required assembly curation [(1)](https://link.springer.com/article/10.1186/s12864-017-3918-9).
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Metagenomics assemblies are almost inevitable in metagenomic analysis to reduce the fragmentation of informations and highlight sample characteristics. Reads are assembled into contigs using [megahit](https://github.com/voutcn/megahit) a fast assembler optimized for metagenomes and based on k-mers succinct de Bruijn graphs. Megahit is faster and perform comparably as SPAde and metaSPAdes. SPAde assemblies might be better in term of long contigs and ultra long contigs, it's also show a greater rate of missassemblies which required assembly curation [(1)](https://link.springer.com/article/10.1186/s12864-017-3918-9).
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... | @@ -28,4 +29,4 @@ Co-assembly require the [simka module](Modules/simka). In this case, reads from |
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[Previous - Simka (Module)](Modules/simka)
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[Previous - Simka (Module)](Modules/simka)
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[Next - Binning (Module)](Modules/binning) |
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[Next - Genes collection (Module)](Modules/genes_collection) |
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