graphtyper¶
Description¶
graphtyper is a graph-based variant caller capable of genotyping population-scale short read data sets. It represents a reference genome and known variants of a genomic region using an acyclic graph structure (a "pangenome reference"), which high-throughput sequence reads are re-aligned to for the purpose of discovering and genotyping SNPs, small indels, and structural variants.
Environment Modules¶
Run module spider graphtyper to find out what environment modules are available for this application.
Environment Variables¶
- HPC_GRAPHTYPER_DIR - installation directory
- HPC_GRAPHTYPER_BIN - executable directory
Citation¶
If you publish research that uses graphtyper you have to cite it as follows:
Categories¶
phylogenetics