What are the best tools for Genome assembly

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5.3 years ago

Shawrob400 ▴ 10

We are establishing a genome assembly project of local goat breed in Bangladesh .if we have 10x reads Coverage, Is this enough for? And also need some information regarding this project, what are the best tools for assembly? Commercial or non-commercial.

Assembly genome • 1.5k views

ADD COMMENT • link updated 5 months ago by Ram 41k • written 5.3 years ago by Shawrob400 ▴ 10

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Google is a heck of a tool - doesn't do genome assembly, but gives good results when searching for best genome assembler.

Another great resource: How To Ask Good Questions On Technical And Scientific Forums

What is the sequencing platform? What is the organism? What is the genome size? What is the purpose of the assembly? 10x is low coverage, but it will be fine if all you want is to find microsatellites and design primers for them, for example. For most other uses, though, it won't be enough.

ADD REPLY • link 5.3 years ago by h.mon 35k

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if we have 10x reads Coverage, Is this enough for??

No (sorry but there is no gentler way to put it). You may get some kind of an assembly but it would be far from the answer you are going to be looking for.

ADD REPLY • link 5.3 years ago by GenoMax 136k

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you will need to add some more information to get meaningful answers I'm afraid.

eg start by mentioning: what kind of species? which seq data type? genome size, things like that.

ADD REPLY • link 5.3 years ago by lieven.sterck 14k

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