Author: Jiao Chen; Jiayu Shang; Jianrong Wang; Yanni Sun
Title: A binning tool to reconstruct viral haplotypes from assembled contigs Document date: 2019_7_16
ID: 2basllfv_39
Snippet: 3.1.1 Data simulation HIV haplotype construction There are many sequenced HIV strains in the HIV Sequence Database (Foley, Brian and Leitner, Thomas and Apetrei, Cristian, 2018) . However, many of the strains do not possess sufficiently high similarity to be included in simulated quasispecies. Thus, we use both real and simulated strain sequences to simulate haplotypes of high similarity. Simulated strains were produced by mutating, deleting, or .....
Document: 3.1.1 Data simulation HIV haplotype construction There are many sequenced HIV strains in the HIV Sequence Database (Foley, Brian and Leitner, Thomas and Apetrei, Cristian, 2018) . However, many of the strains do not possess sufficiently high similarity to be included in simulated quasispecies. Thus, we use both real and simulated strain sequences to simulate haplotypes of high similarity. Simulated strains were produced by mutating, deleting, or inserting bases at random positions from a real strain in the HIV database.
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