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.
module spider temp2 to find out what environment modules are available for this application.
- HPC_TEMP2_DIR - installation directory
- HPC_TEMP2_BIN - executable directory
If you publish research that uses temp2 you have to cite it as follows:
Yu et al. A benchmark and an algorithm for detecting germline transposon insertions and measuring de novo transposon insertion frequencies. Nucleic Acid Research. 2021.