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TEMP2

Description

temp2 website

TEMP2 is an algorithm for detecting transposon insertions using short-read whole-genome sequencing data. It can not only precisely detect germline transposon insertions, but also estimate the number of uninherited/somatic transposon insertions by removing artificial insertion introduced by chimeric reads.

Environment Modules

Run module spider temp2 to find out what environment modules are available for this application.

Environment Variables

  • HPC_TEMP2_DIR - installation directory
  • HPC_TEMP2_BIN - executable directory

Citation

If you publish research that uses temp2 you have to cite it as follows:

Yu, T., Huang, X., Dou, S., Tang, X., Luo, S., Theurkauf, W. E., Lu, J., & Weng, Z. (2021). A benchmark and an algorithm for detecting germline transposon insertions and measuring de novo transposon insertion frequencies. Nucleic acids research, 49(8), e44. https://doi.org/10.1093/nar/gkab010

Categories

phylogenetics