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Repository kmergenie

Name: kmergenie

Owner: rchikhi

Synopsis: K-mer abundance histograms and estimation of the best k-mer length for de novo assembly

Detailed description:

KmerGenie estimates the best k-mer length for de novo assembly. Given a set of reads, KmerGenie first computes the k-mer abundance histogram for many values of k. Then, for each value of k, it predicts the number of distinct genomic k-mers in the dataset, and returns the k-mer length which maximizes this number. Experiments show that KmerGenie's choices lead to assemblies that are close to the best possible over all k-mer lengths.

Link to this repository: https://toolshed.g2.bx.psu.edu/view/rchikhi/kmergenie/2d4b0398cbaf

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/rchikhi/kmergenie

Type: unrestricted

Revision: 16:2d4b0398cbaf

This revision can be installed: True

Times cloned / installed: 638