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DEVIDER

Description

devider website

DEVIDER is a method that separates long reads (Nanopore or PacBio) into groups with similar alleles. This is called "phasing" or "haplotyping". devider is a "local haplotyping" method, so it works best when the sequence-of-interest is approximately the size of the reads. For bacterial genome-scale haplotyping, consider another tool such as floria.

Environment Modules

Run module spider devider to find out what environment modules are available for this application.

Environment Variables

  • HPC_DEVIDER_DIR - installation directory
  • HPC_DEVIDER_BIN - executable directory

Citation

If you want to cite the Bloom Filter Trie, please use:

Shaw, J., Boucher, C., Yu, Y. W., Noyes, N., & Li, H. (2024). devider: long-read reconstruction of many diverse haplotypes. bioRxiv, 2024-11. https://doi.org/10.1101/2024.11.05.621838

Categories

biology, genomics, ngs, nanopore