popoolationte

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Last Update: 2016-10-11

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PoPoolation TE is a quick and simple pipeline for the analysis of transposable element insertions in (natural) populations using next generation sequencing. PoPoolation TE calculates TE insertion frequencies for TEs that are present in the reference genome as well as for novel TE insertions.
PoPoolation TE requires paired-end reads from a pooled population, a reference sequence and transposable element sequences .

Documentation: https://sourceforge.net/p/popoolationte/wiki/Main/

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2015-03-18

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PoPoolationTE2: enables comparative population genomics of transposable elements (TE). As a major innovation PoPoolation TE2 introduces the physical pileup file which allows to homogenize the power to identify TEs and thus enables an unbiased comparison of TE abundance between samples, where samples could be pooled populations, tissues or sequenced individuals.
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