Contig Assebly into Scaffold

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5.7 years ago

ashaneev07 ▴ 40

Hiii.... Which tool is much better for contigs assembly to create scaffolds? Need your suggestions. Thank you.

assembly sequence genome next-gen • 1.2k views

ADD COMMENT • link updated 5.6 years ago by Biostar 20 • written 5.7 years ago by ashaneev07 ▴ 40

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this is a very broad question. Adding more detail will increase the change of getting a decent (== useful) answer.

Eg. try to add: species? data types? things like that. (cfr: How To Ask Good Questions On Technical And Scientific Forums )

ADD REPLY • link 5.7 years ago by lieven.sterck 15k

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Briefly, you need long range information. Have a read about mate pairs or long jumping distance libraries. However, long reads by themselves - particulary PacBio or Oxford Nanopore - will give you the most contiguous assemblies. Polishing these to remove erros can be challenging though.

ADD REPLY • link 5.7 years ago by colindaven 7.0k

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