TElocal

TElocal is a locus-specific version of our popular TEtranscripts tool that uses both uniquely and ambiguously mapped reads to quantify transposable element expression at the locus level.

If you encounter any issues or have any questions about TElocal, please refer to our Github page.

Download instructions

You can download the source code from GitHub. The pre-built transposable element GTF indices required by TElocal are available at this location. The genomic position of the transposable elements in the pre-built GTF indices are available here.

Tool Description

Please see our README on Github for more information.

Citation

Please see our Github page for more details - the TElocal base algortihm is derived from our published TEtranscripts tool.

Jin Y, Tam OH, Paniagua E, Hammell M. (2015) TEtranscripts: a package for including transposable elements in differential expression analysis of RNA-seq datasets.  Bioinformatics. 31(22):3593-9. Pubmed ID: 26206304

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