NextGenMap

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Description

nextgenmap website  

NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms while still outperforming them in terms of runtime. This allows analyzing large-scale datasets even with increased SNP rates or higher error rates (e.g. caused by specialized experimental protocols) and avoids bias…

Required Modules

Serial

  • gcc/5.2.0
  • nextgenmap

System Variables

  • HPC_NEXTGENMAP_DIR - installation directory
  • HPC_NEXTGENMAP_BIN - executable directory




Citation

If you publish research that uses nextgenmap you have to cite it as follows:

NextGenMap: fast and accurate read mapping in highly polymorphic genomes. Bioinformatics (2013) 29 (21): 2790-2791 first published online August 23, 2013 doi:10.1093/bioinformatics/btt468