LIONS: Analysis Suite for Detecting and Quantifying Transposable Element Initiated Transcription from RNA-seq

SUMMARY Transposable Elements (TEs) influence the evolution of novel transcriptional networks yet the specific and meaningful interpretation of how TE derived transcriptional initiation contributes to the transcriptome has been marred by computational and methodological deficiencies. We developed LIONS for the analysis of RNA-seq data to specifically detect and quantify TE-initiated transcripts. AVAILABILITY Source code, container, test data and instruction manual are freely available at www.github.com/ababaian/LIONS. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.

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