URL: http://sourceforge.net/projects/qure/
Proper Citation: QuRe (RRID:SCR_005209)
Description: A software program for viral quasispecies reconstruction, specifically developed to analyze long read (>100 bp) next-generation sequencing (NGS) data. The software performs alignments of sequence fragments against a reference genome, finds an optimal division of the genome into sliding windows based on coverage and diversity and attempts to reconstruct all the individual sequences of the viral quasispecies--along with their prevalence--using a heuristic algorithm, which matches multinomial distributions of distinct viral variants overlapping across the genome division. QuRe comes with a built-in Poisson error correction method and a post-reconstruction probabilistic clustering, both parameterized on given error rates in homopolymeric and non-homopolymeric regions.
Abbreviations: QuRe
Synonyms: qure - software for viral quasispecies reconstruction from next-gen seq. data
Resource Type: software resource
Keywords: next-generation sequencing, virus, long read, reconstruction
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