Welcome

This set of programs allows one to identify transposable element insertions (TEI) in a sequenced sample with respect to an assembled reference.

The main script jitterbug.py performs this analysis, using a .bam file of mapped reads and the annotation of TEs in the reference.

Additional modules are provided to filter and plot these results, compare tumor/normal pairs as well evaluate predictions from simulated data.

TO ACCESS THE CODE VERSION RELEASED WITH THE ASSOCIATED PUBLICATION:

Please go to Code -> Select Branch "Release1"