A hybrid pipeline for reconstruction and analysis of viral genomes at multi-organ level.

ABSTRACT:

Background

Advances in sequencing technologies have enabled the characterization of multiple microbial and host genomes, opening new frontiers of knowledge while kindling novel applications and research perspectives. Among these is the investigation of the viral communities residing in the human body and their impact on health and disease. To this end, the study of samples from multiple tissues is critical, yet, the complexity of such analysis calls for a dedicated pipeline. We provide an automatic and efficient pipeline for identification, assembly, and analysis of viral genomes that combines the DNA sequence data from multiple organs. TRACESPipe relies on cooperation among 3 modalities: compression-based prediction, sequence alignment, and de novo assembly. The pipeline is ultra-

SUBMITTER: Pratas D 

PROVIDER: S-EPMC7439602 | biostudies-literature | 2020 Aug

REPOSITORIES: biostudies-literature