Genotyping by sequencing data analysis software tools
Genotyping by sequencing (GBS) is a next generation sequencing based method that takes advantage of reduced representation to enable high throughput genotyping of large numbers of individuals at a large number of SNP markers. The relatively straightforward, robust, and cost-effective GBS protocol is currently being applied in numerous species by a large number of researchers.
Source text:
(Glaubitz et al., 2014) TASSEL-GBS: a high capacity genotyping by sequencing analysis pipeline. PLoS One.
Base calling
32 tools
Read quality control
111 tools
Adapter trimming
111 tools
Read clustering
21 tools
Demultiplexing
24 tools
Quality control
14 tools
Genotype imputation
36 tools
Summary statistics
25 tools
Single SNP association
42 tools
Fine mapping
12 tools
Region-based association
7 tools
Association mapping
42 tools
Rare variant association
52 tools
Joint association
24 tools
Linkage disequilibrium assessment
27 tools
Haplotype association
20 tools
SNP prioritization
72 tools
Meta-analysis
35 tools
Power/sample size calculation
6 tools
