Quikr

Method for rapid reconstruction (phylotyping) of bacterial communities

Brought to you by: dkoslicki

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Last Update: 2016-09-24

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Quikr is a QUadratic, Iterative, K-mer based Reconstruction technique that utilizes sparsity promoting ideas from the field of compressed sensing to reconstruct the composition of a bacterial community (when the input data is 454-like pyrosequencing data). This extremely fast method comes with a default training database but can be custom trained. Typically reconstruction is accurate down to the genus level.

See the README file for installation directions.
Usage details are in the folder /quikr/doc

Please contact me if there are any concerns/issues.

Thanks and enjoy!

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Registered

2012-12-10

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