Additional file 2: of An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar
Nathan Grubaugh
Karthik Gangavarapu
Joshua Quick
Nathaniel Matteson
Jaqueline Jesus
Bradley Main
Amanda Tan
Lauren Paul
Doug Brackney
Saran Grewal
Nikos Gurfield
Koen Van Rompay
Sharon Isern
Scott Michael
Lark Coffey
Nicholas Loman
Kristian Andersen
10.6084/m9.figshare.7563974.v1
https://springernature.figshare.com/articles/journal_contribution/Additional_file_2_of_An_amplicon-based_sequencing_framework_for_accurately_measuring_intrahost_virus_diversity_using_PrimalSeq_and_iVar/7563974
iSNV frequencies calculated using pseudo replicates (Figure S1.), sensitivity of measuring intrahost diversity at 5% (Figure S2.), metagenomic sequencing coverage depth (Figure S3.), and validation of iVar for intrahost single-nucleotide variant calling (Figure S4.), consensus calling (Figure S5.), and trimming (Figure S6.). (PDF 7109 kb)
2019-01-08 05:00:00
Viral sequencing
Amplicon sequencing
Intrahost evolution
Zika
West Nile
SNP calling