数字农科院2.0

Building pangenome graphs

文献类型： 外文期刊

作者： Garrison, Erik;Guarracino, Andrea;Heumos, Simon;Villani, Flavia;Bao, Zhigui;Tattini, Lorenzo;Hagmann, Joerg;Vorbrugg, Sebastian;Marco-Sola, Santiago;Kubica, Christian;Ashbrook, David G.;Thorell, Kaisa;Rusholme-Pilcher, Rachel L.;Liti, Gianni;Rudbeck, Emilio;Golicz, Agnieszka A.;Nahnsen, Sven;Yang, Zuyu;Mwaniki, Moses Njagi;Nobrega, Franklin L.;Wu, Yi;Chen, Hao;de Ligt, Joep;Sudmant, Peter H.;Huang, Sanwen;Weigel, Detlef;Soranzo, Nicole;Colonna, Vincenza;Williams, Robert W.;Prins, Pjotr

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期刊名称： NATURE METHODS

ISSN： 1548-7091

年卷期： 2024 年

页码：

收录情况： SCIE（2024版）

摘要： Pangenome graphs can represent all variation between multiple reference genomes, but current approaches to build them exclude complex sequences or are based upon a single reference. In response, we developed the PanGenome Graph Builder, a pipeline for constructing pangenome graphs without bias or exclusion. The PanGenome Graph Builder uses all-to-all alignments to build a variation graph in which we can identify variation, measure conservation, detect recombination events and infer phylogenetic relationships. PGGB is a modular framework for efficiently building unbiased pangenome graphs, supporting diverse downstream analyses.

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