Research graph
References from NGS allele counts versus called genotypes for testing genetic association. Local targets link to admitted publications; unresolved targets remain external evidence.
Genotype-phenotype associations: substitution models to detect evolutionary associations between phenotypic variables and genotypic evolutionary rate
10.1093/bioinformatics/btp231 · 2009 · External reference
10.1038/nrg2986
10.1038/nrg2986 · External reference
SeqEM: an adaptive genotype-calling approach for next-generation sequencing studies
10.1093/bioinformatics/btq526 · 2010 · External reference
10.1101/gr.078212.108
10.1101/gr.078212.108 · External reference
10.1101/gr.092213.109
10.1101/gr.092213.109 · External reference
10.1101/gr.088013.108
10.1101/gr.088013.108 · External reference
BCFtools/csq: haplotype-aware variant consequences
10.1093/bioinformatics/btx100 · 2017 · External reference
VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing
10.1101/gr.129684.111 · 2012 · External reference
Unresolved reference
External reference
Testing rare-variant association without calling genotypes allows for systematic differences in sequencing between cases and controls
2016 · External reference
Using next-generation DNA sequence data for genetic association tests based on allele counts with and without consideration of zero inflation
10.1186/s12919-016-0062-5 · 2016 · External reference
The International HapMap Project
10.1038/nature02168 · 2003 · External reference
The personal genome project
2005 · External reference
A global reference for human genetic variation
10.1038/nature15393 · 2015 · External reference
10.1038/ng.160
10.1038/ng.160 · External reference
10.1038/ng.3643
10.1038/ng.3643 · External reference
10.1186/s13059-014-0550-8
10.1186/s13059-014-0550-8 · External reference
Association studies using family pools of outcrossing crops based on allele-frequency estimates from DNA sequencing
10.1007/s00122-014-2300-4 · 2014 · External reference
10.3389/fpls.2018.00369
10.3389/fpls.2018.00369 · External reference
Genomic prediction of autotetraploids; influence of relationship matrices, allele dosage, and continuous genotyping calls in phenotype prediction
10.1534/g3.119.400059 · 2019 · External reference
polyRAD: Genotype calling with uncertainty from sequencing data in polyploids and diploids
10.1534/g3.118.200913 · 2019 · External reference
10.1101/2021.03.05.434007
10.1101/2021.03.05.434007 · External reference
Genotyping polyploids from messy sequencing data
10.1534/genetics.118.301468 · 2018 · External reference
