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1. horizontalTransfer horizontalTransfer Public

   Code used to infer and filter horizontal transfer events in eukaryotes. GPL Version 3 license.

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2. L1-dynamics L1-dynamics Public

   Sample code to accompany the L1 evolutionary dynamics across eukaryotes manuscript. Shows how to perform two independent extraction methods: iterative search using LASTZ on genomic data, versus tra…

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3. regionalGenomeTurnover regionalGenomeTurnover Public

   Scripts that were used in "Divergent genome evolution caused by regional variation in DNA gain and loss between human and mouse"

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4. HTT_detection HTT_detection Public

   Methods for detection of horizontal transfer of transposable elements from genome sequences. GPL version 3 license.

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5. Tuatara-paper Tuatara-paper Public

   Contains the scripts used to analyse tuatara transposable elements, generate figures for tautara paper and infer phylogenies

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6. Elephant-project Elephant-project Public

   Contains the scripts used to convert BAM to BED, generate binary sequences and infer phylogenies.

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