RT Journal Article
SR Electronic
T1 kWIP: The k-mer Weighted Inner Product, a de novo estimator of genetic similarity
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 075481
DO 10.1101/075481
A1 Kevin D. Murray
A1 Christfried Webers
A1 Cheng Soon Ong
A1 Justin O. Borevitz
A1 Norman Warthmann
YR 2016
UL http://biorxiv.org/content/early/2016/09/16/075481.abstract
AB Modern techniques used in the elucidation of population genomic variation generate potentially overwhelming quantities of data. The nature and scale of this data demands the development of computationally efficient methods to determine genetic relatedness in an unbiased de novo manner. We present the k-mer Weighted Inner Product (kWIP), a novel assembly and alignment free estimator of genetic similarity. We show kWIP can recapitulate observed relationships among samples across diverse datasets and reconstruct the true relatedness between samples with simulated sequence. kWIP is licensed under the GNU GPL, and available from https://github.com/kdmurray91/kwip.