K-shuff: A Novel Algorithm for Characterizing Structural and Compositional Diversity in Gene Libraries.

ABSTRACT: K-shuff is a new algorithm for comparing the similarity of gene sequence libraries, providing measures of the structural and compositional diversity as well as the significance of the differences between these measures. Inspired by Ripley's K-function for spatial point pattern analysis, the Intra K-function or IKF measures the structural diversity, including both the richness and overall similarity of the sequences, within a library. The Cross K-function or CKF measures the compositional diversity between gene libraries, reflecting both the number of OTUs shared as well as the overall similarity in OTUs. A Monte Carlo testing procedure then enables statistical evaluation of both the structural and compositional diversity between gene libraries. For 16S rRNA gene libraries from complex bact

SUBMITTER: Jangid K 

PROVIDER: S-EPMC5135132 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature