DCAlign is a new alignment method able to cope with the conservation and the co-evolution signals that characterize the columns of multiple sequence alignments of homologous sequences. However, the pre-processing steps required to align a candidate sequence are computationally demanding. We show in v1.0 how to dramatically reduce the overall computing time by including an empirical prior over an informative set of variables mirroring the presence of insertions and deletions. DCAlign v1.0 is implemented in Julia and it is fully available at https://github.com/infernet-h2020/DCAlign. Supplementary data are available at Bioinformatics online.

DCAlign v1.0: Aligning biological sequences using co-evolution models and informed priors / Muntoni, Anna Paola; Pagnani, Andrea. - In: BIOINFORMATICS. - ISSN 1367-4811. - 39:9(2023). [10.1093/bioinformatics/btad537]

DCAlign v1.0: Aligning biological sequences using co-evolution models and informed priors

Muntoni, Anna Paola;Pagnani, Andrea
2023

Abstract

DCAlign is a new alignment method able to cope with the conservation and the co-evolution signals that characterize the columns of multiple sequence alignments of homologous sequences. However, the pre-processing steps required to align a candidate sequence are computationally demanding. We show in v1.0 how to dramatically reduce the overall computing time by including an empirical prior over an informative set of variables mirroring the presence of insertions and deletions. DCAlign v1.0 is implemented in Julia and it is fully available at https://github.com/infernet-h2020/DCAlign. Supplementary data are available at Bioinformatics online.
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11583/2981844