HiTea

A computational pipeline to identify non-reference transposable element insertions in Hi-C data. computational tool to identify trasposable element insertions using Hi-C data. HiTea (Hi-C based Transposable Element Analyzer) is geared to idenify non-reference transposable elemenet insertions from the Hi-C data. It uses split Hi-C read information and read coverage to detect insertions of three major classes of active human transposable elements (TE) - Alu (SINE), L1HS(LINE) and SVA.